VFB scRNAseq Ontology for dataset FBlc0007797
type: Ontology
description: An ontology of Drosophila melanogaster scRNAseq data from a single dataset (FBlc0007797). This information is taken from FlyBase, which sources it from the EMBL-EBI Single Cell Expression Atlas, which compiles scRNAseq data from multiple sources.

definition
type: AnnotationProperty
IAO_0000111: definition
IAO_0000114: IAO_0000122
definition: A property representing the English language definitions of what NCI means by the concept. They may also include information about the definition's source and attribution in a form that can easily be interpreted by software.
definition: The official OBI definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions.
definition: The official definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions.
definition: The official definition.
IAO_0000116: 2012-04-05: Barry Smith The official OBI definition, explaining the meaning of a class or property: 'Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions' is terrible. Can you fix to something like: A statement of necessary and sufficient conditions explaining the meaning of an expression referring to a class or property. Alan Ruttenberg Your proposed definition is a reasonable candidate, except that it is very common that necessary and sufficient conditions are not given. Mostly they are necessary, occasionally they are necessary and sufficient or just sufficient. Often they use terms that are not themselves defined and so they effectively can't be evaluated by those criteria. On the specifics of the proposed definition: We don't have definitions of 'meaning' or 'expression' or 'property'. For 'reference' in the intended sense I think we use the term 'denotation'. For 'expression', I think we you mean symbol, or identifier. For 'meaning' it differs for class and property. For class we want documentation that let's the intended reader determine whether an entity is instance of the class, or not. For property we want documentation that let's the intended reader determine, given a pair of potential relata, whether the assertion that the relation holds is true. The 'intended reader' part suggests that we also specify who, we expect, would be able to understand the definition, and also generalizes over human and computer reader to include textual and logical definition. Personally, I am more comfortable weakening definition to documentation, with instructions as to what is desirable. We also have the outstanding issue of how to aim different definitions to different audiences. A clinical audience reading chebi wants a different sort of definition documentation/definition from a chemistry trained audience, and similarly there is a need for a definition that is adequate for an ontologist to work with.
IAO_0000117: PERSON:Daniel Schober
IAO_0000119: GROUP:OBI:<http://purl.obolibrary.org/obo/obi>
has exact synonym: DEFINITION
label: textual definition

is a defining property chain axiom
type: AnnotationProperty
definition: If R <- P o Q is a defining property chain axiom, then it also holds that R -> P o Q. Note that this cannot be expressed directly in OWL

is a defining property chain axiom where second argument is reflexive
type: AnnotationProperty
definition: If R <- P o Q is a defining property chain axiom, then (1) R -> P o Q holds and (2) Q is either reflexive or locally reflexive. A corollary of this is that P SubPropertyOf R.

database_cross_reference
type: AnnotationProperty
IAO_0000112: disease characteristic (MONDO:0021125) has cross-reference (http://www.geneontology.org/formats/oboInOwl#hasDbXref) "NCIT:C41009"^^xsd:string
definition: An annotation property that links an ontology entity or a statement to a prefixed identifier or URI.
definition: Reference database or publication source.
IAO_0000233: https://github.com/information-artifact-ontology/ontology-metadata/issues/123
contributor: https://orcid.org/0000-0002-7356-1779
label: has cross-reference

part of
type: ObjectProperty
sub property of: overlaps
inverse of: has part
type: TransitiveProperty
IAO_0000111: is part of
IAO_0000112: my brain is part of my body (continuant parthood, two material entities)
IAO_0000112: my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)
IAO_0000112: this day is part of this year (occurrent parthood)
definition: a core relation that holds between a part and its whole
IAO_0000116: Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other.
IAO_0000116: Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/
IAO_0000116: Parthood requires the part and the whole to have compatible classes: only an occurrent can be part of an occurrent; only a process can be part of a process; only a continuant can be part of a continuant; only an independent continuant can be part of an independent continuant; only an immaterial entity can be part of an immaterial entity; only a specifically dependent continuant can be part of a specifically dependent continuant; only a generically dependent continuant can be part of a generically dependent continuant. (This list is not exhaustive.) A continuant cannot be part of an occurrent: use 'participates in'. An occurrent cannot be part of a continuant: use 'has participant'. A material entity cannot be part of an immaterial entity: use 'has location'. A specifically dependent continuant cannot be part of an independent continuant: use 'inheres in'. An independent continuant cannot be part of a specifically dependent continuant: use 'bearer of'.
IAO_0000118: part_of
RO_0001900: RO_0001901
RO_0040042: BFO_0000002
RO_0040042: BFO_0000003
RO_0040042: BFO_0000004
RO_0040042: BFO_0000017
RO_0040042: BFO_0000019
RO_0040042: BFO_0000020
RO_0040042: BFO_0000031
in subset: valid for go annotation extension
in subset: valid for go gp2term
in subset: valid for go ontology
in subset: valid for gocam

has part
type: ObjectProperty
sub property of: overlaps
type: TransitiveProperty
IAO_0000111: has part
IAO_0000112: my body has part my brain (continuant parthood, two material entities)
IAO_0000112: my stomach has part my stomach cavity (continuant parthood, material entity has part immaterial entity)
IAO_0000112: this year has part this day (occurrent parthood)
definition: a core relation that holds between a whole and its part
IAO_0000116: Everything has itself as a part. Any part of any part of a thing is itself part of that thing. Two distinct things cannot have each other as a part.
IAO_0000116: Occurrents are not subject to change and so parthood between occurrents holds for all the times that the part exists. Many continuants are subject to change, so parthood between continuants will only hold at certain times, but this is difficult to specify in OWL. See http://purl.obolibrary.org/obo/ro/docs/temporal-semantics/
IAO_0000116: Parthood requires the part and the whole to have compatible classes: only an occurrent have an occurrent as part; only a process can have a process as part; only a continuant can have a continuant as part; only an independent continuant can have an independent continuant as part; only a specifically dependent continuant can have a specifically dependent continuant as part; only a generically dependent continuant can have a generically dependent continuant as part. (This list is not exhaustive.) A continuant cannot have an occurrent as part: use 'participates in'. An occurrent cannot have a continuant as part: use 'has participant'. An immaterial entity cannot have a material entity as part: use 'location of'. An independent continuant cannot have a specifically dependent continuant as part: use 'bearer of'. A specifically dependent continuant cannot have an independent continuant as part: use 'inheres in'.
IAO_0000118: has_part
RO_0001900: RO_0001901
in subset: valid for go annotation extension
in subset: valid for go ontology
in subset: valid for gocam

realized in
type: ObjectProperty
inverse of: realizes
domain: BFO_0000017
range: BFO_0000015
IAO_0000111: realized in
IAO_0000112: this disease is realized in this disease course
IAO_0000112: this fragility is realized in this shattering
IAO_0000112: this investigator role is realized in this investigation
IAO_0000118: is realized by
IAO_0000118: realized_in
IAO_0000600: [copied from inverse property 'realizes'] to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])
comment: Paraphrase of elucidation: a relation between a realizable entity and a process, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process

realizes
type: ObjectProperty
domain: BFO_0000015
range: BFO_0000017
IAO_0000111: realizes
IAO_0000112: this disease course realizes this disease
IAO_0000112: this investigation realizes this investigator role
IAO_0000112: this shattering realizes this fragility
definition: Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process
IAO_0000600: to say that b realizes c at t is to assert that there is some material entity d & b is a process which has participant d at t & c is a disposition or role of which d is bearer_of at t& the type instantiated by b is correlated with the type instantiated by c. (axiom label in BFO2 Reference: [059-003])
comment: Paraphrase of elucidation: a relation between a process and a realizable entity, where there is some material entity that is bearer of the realizable entity and participates in the process, and the realizable entity comes to be realized in the course of the process

preceded by
type: ObjectProperty
sub property of: ends after
inverse of: precedes
type: TransitiveProperty
domain: BFO_0000003
range: BFO_0000003
property chain axiom: part of
property chain axiom: starts during
property chain axiom: happens during
IAO_0000111: preceded by
definition: x is preceded by y if and only if the time point at which y ends is before or equivalent to the time point at which x starts. Formally: x preceded by y iff ω(y) <= α(x), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point.
IAO_0000116: An example is: translation preceded_by transcription; aging preceded_by development (not however death preceded_by aging). Where derives_from links classes of continuants, preceded_by links classes of processes. Clearly, however, these two relations are not independent of each other. Thus if cells of type C1 derive_from cells of type C, then any cell division involving an instance of C1 in a given lineage is preceded_by cellular processes involving an instance of C. The assertion P preceded_by P1 tells us something about Ps in general: that is, it tells us something about what happened earlier, given what we know about what happened later. Thus it does not provide information pointing in the opposite direction, concerning instances of P1 in general; that is, that each is such as to be succeeded by some instance of P. Note that an assertion to the effect that P preceded_by P1 is rather weak; it tells us little about the relations between the underlying instances in virtue of which the preceded_by relation obtains. Typically we will be interested in stronger relations, for example in the relation immediately_preceded_by, or in relations which combine preceded_by with a condition to the effect that the corresponding instances of P and P1 share participants, or that their participants are connected by relations of derivation, or (as a first step along the road to a treatment of causality) that the one process in some way affects (for example, initiates or regulates) the other.
IAO_0000118: is preceded by
IAO_0000118: preceded_by
source: http://www.obofoundry.org/ro/#OBO_REL:preceded_by
in subset: ro-eco

precedes
type: ObjectProperty
sub property of: temporally related to
type: TransitiveProperty
domain: BFO_0000003
range: BFO_0000003
property chain axiom: part of
property chain axiom: happens during
IAO_0000111: precedes
definition: x precedes y if and only if the time point at which x ends is before or equivalent to the time point at which y starts. Formally: x precedes y iff ω(x) <= α(y), where α is a function that maps a process to a start point, and ω is a function that maps a process to an end point.
in subset: ro-eco

substage of
type: ObjectProperty
sub property of: occurrent part of
sub property of: happens during
type: TransitiveProperty
definition: A relation between a developmental stage and another, larger developmental stage during which it happens.
has OBO namespace: relationship
id: FBdv:00018001
comment: Creating this relation as a temporary fix, pending adding the axiom occurrent_part_of subproperty of happens_during to RO.

Axiom
annotated source: substage of
annotated property: definition
annotated target: A relation between a developmental stage and another, larger developmental stage during which it happens.
database_cross_reference: FBC:DPG

has specified input
type: ObjectProperty
sub property of: has participant
inverse of: is specified input of
domain: planned process
IAO_0000111: has specified input
IAO_0000112: see is_input_of example_of_usage
IAO_0000114: IAO_0000122
definition: The inverse property of is specified input of
IAO_0000116: 8/17/09: specified inputs of one process are not necessarily specified inputs of a larger process that it is part of. This is in contrast to how 'has participant' works.
IAO_0000117: PERSON: Alan Ruttenberg
IAO_0000117: PERSON: Bjoern Peters
IAO_0000117: PERSON: Larry Hunter
IAO_0000117: PERSON: Melanie Coutot

is specified input of
type: ObjectProperty
sub property of: participates in
range: planned process
IAO_0000111: is specified input of
IAO_0000112: some Autologous EBV(Epstein-Barr virus)-transformed B-LCL (B lymphocyte cell line) is_input_for instance of Chromum Release Assay described at https://wiki.cbil.upenn.edu/obiwiki/index.php/Chromium_Release_assay
IAO_0000114: IAO_0000122
definition: A relation between a planned process and a continuant participating in that process that is not created during the process. The presence of the continuant during the process is explicitly specified in the plan specification which the process realizes the concretization of.
IAO_0000117: Alan Ruttenberg
IAO_0000117: PERSON:Bjoern Peters

has specified output
type: ObjectProperty
sub property of: has participant
inverse of: is specified output of
domain: planned process
IAO_0000111: has specified output
IAO_0000114: IAO_0000122
definition: The inverse property of is specified output of
IAO_0000117: PERSON: Alan Ruttenberg
IAO_0000117: PERSON: Bjoern Peters
IAO_0000117: PERSON: Larry Hunter
IAO_0000117: PERSON: Melanie Courtot

is specified output of
type: ObjectProperty
sub property of: participates in
range: planned process
IAO_0000111: is specified output of
IAO_0000114: IAO_0000122
definition: A relation between a planned process and a continuant participating in that process. The presence of the continuant at the end of the process is explicitly specified in the objective specification which the process realizes the concretization of.
IAO_0000117: Alan Ruttenberg
IAO_0000117: PERSON:Bjoern Peters

achieves_planned_objective
type: ObjectProperty
inverse of: objective_achieved_by
domain: planned process
range: IAO_0000005
IAO_0000111: achieves_planned_objective
IAO_0000112: A cell sorting process achieves the objective specification 'material separation objective'
IAO_0000114: IAO_0000120
definition: This relation obtains between a planned process and a objective specification when the criteria specified in the objective specification are met at the end of the planned process.
IAO_0000117: BP, AR, PPPB branch
IAO_0000119: PPPB branch derived
IAO_0000232: modified according to email thread from 1/23/09 in accordince with DT and PPPB branch

objective_achieved_by
type: ObjectProperty
domain: IAO_0000005
range: planned process
IAO_0000111: objective_achieved_by
IAO_0000114: IAO_0000122
definition: This relation obtains between an objective specification and a planned process when the criteria specified in the objective specification are met at the end of the planned process.
IAO_0000117: OBI
IAO_0000119: OBI

characteristic of
type: ObjectProperty
sub property of: characteristic of part of
inverse of: has characteristic
type: FunctionalProperty
IAO_0000111: inheres in
IAO_0000112: this fragility is a characteristic of this vase
IAO_0000112: this red color is a characteristic of this apple
definition: a relation between a specifically dependent continuant (the characteristic) and any other entity (the bearer), in which the characteristic depends on the bearer for its existence.
IAO_0000118: inheres_in
RO_0001900: RO_0001901
comment: Note that this relation was previously called "inheres in", but was changed to be called "characteristic of" because BFO2 uses "inheres in" in a more restricted fashion. This relation differs from BFO2:inheres_in in two respects: (1) it does not impose a range constraint, and thus it allows qualities of processes, as well as of information entities, whereas BFO2 restricts inheres_in to only apply to independent continuants (2) it is declared functional, i.e. something can only be a characteristic of one thing.

has characteristic
type: ObjectProperty
type: InverseFunctionalProperty
range: BFO_0000020
IAO_0000111: bearer of
IAO_0000112: this apple is bearer of this red color
IAO_0000112: this vase is bearer of this fragility
definition: Inverse of characteristic_of
IAO_0000116: A bearer can have many dependents, and its dependents can exist for different periods of time, but none of its dependents can exist when the bearer does not exist.
IAO_0000118: bearer_of
IAO_0000118: is bearer of
RO_0001900: RO_0001901

participates in
type: ObjectProperty
inverse of: has participant
domain: BFO_0000002
range: BFO_0000003
IAO_0000111: participates in
IAO_0000112: this blood clot participates in this blood coagulation
IAO_0000112: this input material (or this output material) participates in this process
IAO_0000112: this investigator participates in this investigation
definition: a relation between a continuant and a process, in which the continuant is somehow involved in the process
IAO_0000118: participates_in

has participant
type: ObjectProperty
domain: BFO_0000003
range: BFO_0000002
property chain axiom: has part
property chain axiom: realizes
property chain axiom: characteristic of
IAO_0000111: has participant
IAO_0000112: this blood coagulation has participant this blood clot
IAO_0000112: this investigation has participant this investigator
IAO_0000112: this process has participant this input material (or this output material)
definition: a relation between a process and a continuant, in which the continuant is somehow involved in the process
IAO_0000116: Has_participant is a primitive instance-level relation between a process, a continuant, and a time at which the continuant participates in some way in the process. The relation obtains, for example, when this particular process of oxygen exchange across this particular alveolar membrane has_participant this particular sample of hemoglobin at this particular time.
IAO_0000118: has_participant
source: http://www.obofoundry.org/ro/#OBO_REL:has_participant

is concretized as
type: ObjectProperty
inverse of: concretizes
domain: BFO_0000031
range: Class
  union of: BFO_0000015
  union of: BFO_0000020
IAO_0000112: A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The journal article (a generically dependent continuant) is concretized as the quality (a specifically dependent continuant), and both depend on that copy of the printed journal (an independent continuant).
IAO_0000112: An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process).
definition: A relationship between a generically dependent continuant and a specifically dependent continuant or process, in which the generically dependent continuant depends on some independent continuant or process in virtue of the fact that the specifically dependent continuant or process also depends on that same independent continuant. A generically dependent continuant may be concretized as multiple specifically dependent continuants or processes.

concretizes
type: ObjectProperty
domain: Class
  union of: BFO_0000015
  union of: BFO_0000020
range: BFO_0000031
IAO_0000112: A journal article is an information artifact that inheres in some number of printed journals. For each copy of the printed journal there is some quality that carries the journal article, such as a pattern of ink. The quality (a specifically dependent continuant) concretizes the journal article (a generically dependent continuant), and both depend on that copy of the printed journal (an independent continuant).
IAO_0000112: An investigator reads a protocol and forms a plan to carry out an assay. The plan is a realizable entity (a specifically dependent continuant) that concretizes the protocol (a generically dependent continuant), and both depend on the investigator (an independent continuant). The plan is then realized by the assay (a process).
definition: A relationship between a specifically dependent continuant or process and a generically dependent continuant, in which the generically dependent continuant depends on some independent continuant in virtue of the fact that the specifically dependent continuant or process also depends on that same independent continuant. Multiple specifically dependent continuants or processes can concretize the same generically dependent continuant.

role of
type: ObjectProperty
sub property of: characteristic of
inverse of: has role
IAO_0000112: this investigator role is a role of this person
definition: a relation between a role and an independent continuant (the bearer), in which the role specifically depends on the bearer for its existence
IAO_0000116: A role inheres in its bearer at all times for which the role exists, however the role need not be realized at all the times that the role exists.
IAO_0000118: is role of
IAO_0000118: role_of
comment: This relation is modeled after the BFO relation of the same name which was in BFO2, but is used in a more restricted sense - specifically, we model this relation as functional (inherited from characteristic-of). Note that this relation is now removed from BFO2020.

has role
type: ObjectProperty
sub property of: has characteristic
domain: BFO_0000004
range: BFO_0000023
IAO_0000112: this person has role this investigator role (more colloquially: this person has this role of investigator)
definition: a relation between an independent continuant (the bearer) and a role, in which the role specifically depends on the bearer for its existence
IAO_0000116: A bearer can have many roles, and its roles can exist for different periods of time, but none of its roles can exist when the bearer does not exist. A role need not be realized at all the times that the role exists.
IAO_0000118: has_role

occurrent part of
type: ObjectProperty
sub property of: part of
sub property of: causally upstream of or within
domain: BFO_0000003
range: BFO_0000003
definition: A part of relation that applies only between occurrents.

during which ends
type: ObjectProperty
sub property of: temporally related to
inverse of: ends during
IAO_0000117: https://orcid.org/0000-0002-7073-9172
in subset: ro-eco
comment: Previously had ID http://purl.obolibrary.org/obo/RO_0002122 in test files in sandpit - but this seems to have been dropped from ro-edit.owl at some point. No re-use under this ID AFAIK, but leaving note here in case we run in to clashes down the line. Official ID now chosen from DOS ID range.

encompasses
type: ObjectProperty
sub property of: during which starts
inverse of: happens during
type: TransitiveProperty
IAO_0000117: https://orcid.org/0000-0002-7073-9172
IAO_0000118: di
comment: Previously had ID http://purl.obolibrary.org/obo/RO_0002124 in test files in sandpit - but this seems to have been dropped from ro-edit.owl at some point. No re-use under this ID AFAIK, but leaving note here in case we run in to clashes down the line. Official ID now chosen from DOS ID range.

ends after
type: ObjectProperty
sub property of: temporally related to
type: TransitiveProperty
property chain axiom: ends during
property chain axiom: preceded by
IAO_0000117: https://orcid.org/0000-0002-7073-9172
in subset: ro-eco
comment: X ends_after Y iff: end(Y) before_or_simultaneous_with end(X)

immediately preceded by
type: ObjectProperty
sub property of: preceded by
inverse of: immediately precedes
IAO_0000117: https://orcid.org/0000-0002-7073-9172
IAO_0000118: starts_at_end_of
comment: X immediately_preceded_by Y iff: end(X) simultaneous_with start(Y)

during which starts
type: ObjectProperty
sub property of: temporally related to
inverse of: starts during
IAO_0000117: https://orcid.org/0000-0002-7073-9172
in subset: ro-eco
comment: Previously had ID http://purl.obolibrary.org/obo/RO_0002123 in test files in sandpit - but this seems to have been dropped from ro-edit.owl at some point. No re-use under this ID AFAIK, but leaving note here in case we run in to clashes down the line. Official ID now chosen from DOS ID range.

immediately precedes
type: ObjectProperty
sub property of: precedes
IAO_0000117: https://orcid.org/0000-0002-7073-9172
IAO_0000118: ends_at_start_of
IAO_0000118: meets
RO_0002575: precedes
in subset: ro-eco
comment: X immediately_precedes_Y iff: end(X) simultaneous_with start(Y)

starts during
type: ObjectProperty
sub property of: temporally related to
domain: BFO_0000003
range: BFO_0000003
IAO_0000117: https://orcid.org/0000-0002-7073-9172
IAO_0000118: io
in subset: ro-eco
comment: X starts_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (start(X) before_or_simultaneous_with end(Y))

happens during
type: ObjectProperty
sub property of: starts during
sub property of: ends during
type: TransitiveProperty
IAO_0000117: https://orcid.org/0000-0002-7073-9172
IAO_0000118: d
IAO_0000118: during
in subset: valid for go annotation extension
in subset: valid for go ontology
in subset: valid for gocam
in subset: ro-eco
comment: X happens_during Y iff: (start(Y) before_or_simultaneous_with start(X)) AND (end(X) before_or_simultaneous_with end(Y))

ends during
type: ObjectProperty
sub property of: temporally related to
IAO_0000117: https://orcid.org/0000-0002-7073-9172
IAO_0000118: o
IAO_0000118: overlaps
in subset: ro-eco
comment: X ends_during Y iff: ((start(Y) before_or_simultaneous_with end(X)) AND end(X) before_or_simultaneous_with end(Y).

has soma location
type: ObjectProperty
sub property of: overlaps
domain: CL_0000540
range: UBERON_0000465
property chain axiom: part of
property chain axiom: is neuron
property chain axiom: is anatomical entity
IAO_0000114: IAO_0000125
definition: Relation between a neuron and a material anatomical entity that its soma is part of.
IAO_0000117: https://orcid.org/0000-0002-7073-9172
IAO_0000424: <http://purl.obolibrary.org/obo/BFO_0000051> some ( <http://purl.obolibrary.org/obo/GO_0043025> and <http://purl.obolibrary.org/obo/BFO_0000050> some ?Y)
RO_0001900: RO_0001901

overlaps
type: ObjectProperty
sub property of: mereotopologically related to
type: SymmetricProperty
property chain axiom: part of
property chain axiom: has part
IAO_0000114: IAO_0000125
definition: x overlaps y if and only if there exists some z such that x has part z and z part of y
IAO_0000424: http://purl.obolibrary.org/obo/BFO_0000051 some (http://purl.obolibrary.org/obo/BFO_0000050 some ?Y)
RO_0001900: RO_0001901
in subset: valid for go annotation extension
in subset: valid for gocam
in subset: ro-eco

Axiom
annotated source: overlaps
annotated property: propertyChainAxiom
annotated target: has part
annotated target: part of
RO_0002582: true

continuous with
type: ObjectProperty
sub property of: mereotopologically related to
type: SymmetricProperty
domain: BFO_0000004
range: BFO_0000004
IAO_0000114: IAO_0000125
definition: X continuous_with Y if and only if X and Y share a fiat boundary.
IAO_0000117: https://orcid.org/0000-0002-7073-9172
IAO_0000118: connected to
IAO_0000232: The label for this relation was previously connected to. I relabeled this to "continuous with". The standard notion of connectedness does not imply shared boundaries - e.g. Glasgow connected_to Edinburgh via M8; my patella connected_to my femur (via patellar-femoral joint)
RO_0001900: RO_0001901

develops from
type: ObjectProperty
sub property of: has developmental contribution from
sub property of: developmentally preceded by
inverse of: develops into
type: TransitiveProperty
domain: BFO_0000004
range: BFO_0000004
IAO_0000114: IAO_0000125
definition: x develops from y if and only if either (a) x directly develops from y or (b) there exists some z such that x directly develops from z and z develops from y
IAO_0000117: https://orcid.org/0000-0001-9114-8737
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000117: https://orcid.org/0000-0002-7073-9172
IAO_0000117: https://orcid.org/0000-0003-1980-3228
comment: This is the transitive form of the develops from relation

develops into
type: ObjectProperty
sub property of: developmentally succeeded by
sub property of: has potential to develop into
sub property of: has potential to directly develop into
type: TransitiveProperty
IAO_0000114: IAO_0000125
definition: inverse of develops from
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000117: https://orcid.org/0000-0002-7073-9172
IAO_0000117: https://orcid.org/0000-0003-1980-3228
in subset: RO_0002259

expressed in
type: ObjectProperty
sub property of: genomically related to
inverse of: expresses
domain: BFO_0000002
domain: Class
  union of: BFO_0000031
  union of: BFO_0000040
range: UBERON_0000465
property chain axiom: part of
IAO_0000112: 'neural crest cell' SubClassOf expresses some 'Wnt1 gene'
IAO_0000114: IAO_0000125
definition: x expressed in y if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and the transcription of x is part of the gene expression process (iii) x is a mature gene product such as a protein, and x was translated or otherwise processes from a transcript that was transcribed as part of this gene expression process
IAO_0000117: https://orcid.org/0000-0002-6601-2165

capable of
type: ObjectProperty
sub property of: capable of part of
domain: BFO_0000004
range: BFO_0000015
IAO_0000112: mechanosensory neuron capable of detection of mechanical stimulus involved in sensory perception (GO:0050974)
IAO_0000112: osteoclast SubClassOf 'capable of' some 'bone resorption'
definition: A relation between a material entity (such as a cell) and a process, in which the material entity has the ability to carry out the process.
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000118: has function realized in
IAO_0000119: http://www.ncbi.nlm.nih.gov/pubmed/20123131
IAO_0000119: http://www.ncbi.nlm.nih.gov/pubmed/21208450
IAO_0000232: For compatibility with BFO, this relation has a shortcut definition in which the expression "capable of some P" expands to "bearer_of (some realized_by only P)".
in subset: ro-eco

capable of part of
type: ObjectProperty
sub property of: functionally related to
sub property of: causal agent in process
property chain axiom: capable of
property chain axiom: part of
definition: c stands in this relationship to p if and only if there exists some p' such that c is capable_of p', and p' is part_of p.
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000118: has function in

Axiom
annotated source: capable of part of
annotated property: propertyChainAxiom
annotated target: capable of
annotated target: part of
RO_0002582: true

temporally related to
type: ObjectProperty
domain: BFO_0000003
range: BFO_0000003
IAO_0000114: IAO_0000125
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000119: Allen's interval algebra
IAO_0000232: Do not use this relation directly. It is ended as a grouping for relations between occurrents involving the relative timing of their starts and ends.
source: https://docs.google.com/document/d/1kBv1ep_9g3sTR-SD3jqzFqhuwo9TPNF-l-9fUDbO6rM/edit
in subset: ro-eco
comment: A relation that holds between two occurrents. This is a grouping relation that collects together all the Allen relations.

has input
type: ObjectProperty
sub property of: has participant
inverse of: input of
domain: BFO_0000015
IAO_0000114: IAO_0000125
definition: p has input c iff: p is a process, c is a material entity, c is a participant in p, c is present at the start of p, and the state of c is modified during p.
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000118: consumes
in subset: valid for go annotation extension
in subset: valid for go ontology
in subset: valid for gocam
in subset: ro-eco

has developmental contribution from
type: ObjectProperty
sub property of: developmentally preceded by
inverse of: developmentally contributes to
domain: anatomical entity
range: anatomical entity
property chain axiom: has part
IAO_0000112: Mammalian thymus has developmental contribution from some pharyngeal pouch 3; Mammalian thymus has developmental contribution from some pharyngeal pouch 4 [Kardong]
IAO_0000114: IAO_0000125
definition: x has developmental contribution from y iff x has some part z such that z develops from y
IAO_0000117: https://orcid.org/0000-0002-6601-2165

developmentally contributes to
type: ObjectProperty
sub property of: developmentally succeeded by
sub property of: has potential to developmentally contribute to
property chain axiom: develops into
property chain axiom: part of
IAO_0000114: IAO_0000125
definition: inverse of has developmental contribution from
IAO_0000117: https://orcid.org/0000-0002-6601-2165
in subset: RO_0002259

developmentally preceded by
type: ObjectProperty
sub property of: developmentally related to
inverse of: developmentally succeeded by
domain: BFO_0000002
range: BFO_0000002
IAO_0000114: IAO_0000125
definition: Candidate definition: x developmentally related to y if and only if there exists some developmental process (GO:0032502) p such that x and y both participates in p, and x is the output of p and y is the input of p
IAO_0000116: false
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000232: In general you should not use this relation to make assertions - use one of the more specific relations below this one
comment: This relation groups together various other developmental relations. It is fairly generic, encompassing induction, developmental contribution and direct and transitive develops from

developmentally succeeded by
type: ObjectProperty
sub property of: has developmental potential involving
IAO_0000114: IAO_0000125
definition: Inverse of developmentally preceded by
IAO_0000117: https://orcid.org/0000-0002-6601-2165

expresses
type: ObjectProperty
sub property of: genomically related to
IAO_0000114: IAO_0000125
definition: y expresses x if and only if there is a gene expression process (GO:0010467) that occurs in y, and one of the following holds: (i) x is a gene, and x is transcribed into a transcript as part of the gene expression process (ii) x is a transcript, and x was transcribed from a gene as part of the gene expression process (iii) x is a mature gene product (protein or RNA), and x was translated or otherwise processed from a transcript that was transcribed as part of the gene expression process.
IAO_0000117: https://orcid.org/0000-0002-6601-2165

characteristic of part of
type: ObjectProperty
sub property of: depends on
property chain axiom: characteristic of
property chain axiom: part of
definition: q characteristic of part of w if and only if there exists some p such that q inheres in p and p part of w.
IAO_0000116: Because part_of is transitive, inheres in is a sub-relation of characteristic of part of
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000118: inheres in part of
IAO_0000119: http://www.ncbi.nlm.nih.gov/pubmed/20064205
RO_0001900: RO_0001901

Axiom
annotated source: characteristic of part of
annotated property: propertyChainAxiom
annotated target: characteristic of
annotated target: part of
RO_0002582: true

mereotopologically related to
type: ObjectProperty
definition: A mereological relationship or a topological relationship
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000232: Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving parthood or connectivity relationships
RO_0001900: RO_0001901

developmentally related to
type: ObjectProperty
definition: A relationship that holds between entities participating in some developmental process (GO:0032502)
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000232: Do not use this relation directly. It is ended as a grouping for a diverse set of relations, all involving organismal development

functionally related to
type: ObjectProperty
definition: A grouping relationship for any relationship directly involving a function, or that holds because of a function of one of the related entities.
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000232: This is a grouping relation that collects relations used for the purpose of connecting structure and function

part of structure that is capable of
type: ObjectProperty
sub property of: functionally related to
property chain axiom: part of
property chain axiom: capable of
definition: this relation holds between c and p when c is part of some c', and c' is capable of p.
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000118: false

Axiom
annotated source: part of structure that is capable of
annotated property: propertyChainAxiom
annotated target: part of
annotated target: capable of
is a defining property chain axiom: true

genomically related to
type: ObjectProperty
domain: BFO_0000002
range: BFO_0000002
definition: holds between two entities when some genome-level process such as gene expression is involved. This includes transcriptional, spliceosomal events. These relations can be used between either macromolecule entities (such as regions of nucleic acid) or between their abstract informational counterparts.
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000232: Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving the genome of an organism

member of
type: ObjectProperty
sub property of: part of
inverse of: has member
IAO_0000112: An organism that is a member of a population of organisms
definition: is member of is a mereological relation between a item and a collection.
IAO_0000118: is member of
IAO_0000118: member part of
IAO_0000119: SIO
RO_0001900: RO_0001901

has member
type: ObjectProperty
sub property of: has part
type: IrreflexiveProperty
definition: has member is a mereological relation between a collection and an item.
IAO_0000119: SIO
RO_0001900: RO_0001901

input of
type: ObjectProperty
sub property of: participates in
sub property of: functionally related to
definition: inverse of has input
IAO_0000117: https://orcid.org/0000-0002-6601-2165
in subset: RO_0002259
in subset: ro-eco

has developmental potential involving
type: ObjectProperty
sub property of: developmentally related to
domain: anatomical entity
range: anatomical entity
IAO_0000114: IAO_0000428
definition: x has developmental potential involving y iff x is capable of a developmental process with output y. y may be the successor of x, or may be a different structure in the vicinity (as for example in the case of developmental induction).
IAO_0000117: https://orcid.org/0000-0002-6601-2165

has potential to developmentally contribute to
type: ObjectProperty
sub property of: has developmental potential involving
IAO_0000114: IAO_0000428
definition: x has potential to developmentrally contribute to y iff x developmentally contributes to y or x is capable of developmentally contributing to y
IAO_0000117: https://orcid.org/0000-0002-6601-2165

has potential to develop into
type: ObjectProperty
sub property of: has developmental potential involving
IAO_0000114: IAO_0000428
definition: x has the potential to develop into y iff x develops into y or if x is capable of developing into y
IAO_0000117: https://orcid.org/0000-0002-6601-2165
comment: This relation has a stronger meaning than merely indicating that X may develop into Y, in that the capability of developing into Y is always present, even if X does not always actually develop into Y. In particular, this means that if Y is restricted to a given taxon T, X is necessarily likewise restricted.

has potential to directly develop into
type: ObjectProperty
sub property of: has potential to develop into
IAO_0000114: IAO_0000428
definition: x has potential to directly develop into y iff x directly develops into y or x is capable of directly developing into y
IAO_0000117: https://orcid.org/0000-0002-6601-2165

causally related to
type: ObjectProperty
definition: relation that links two events, processes, states, or objects such that one event, process, state, or object (a cause) contributes to the production of another event, process, state, or object (an effect) where the cause is partly or wholly responsible for the effect, and the effect is partly or wholly dependent on the cause.
IAO_0000116: This branch of the ontology deals with causal relations between entities. It is divided into two branches: causal relations between occurrents/processes, and causal relations between material entities. We take an 'activity flow-centric approach', with the former as primary, and define causal relations between material entities in terms of causal relations between occurrents. To define causal relations in an activity-flow type network, we make use of 3 primitives: * Temporal: how do the intervals of the two occurrents relate? * Is the causal relation regulatory? * Is the influence positive or negative? The first of these can be formalized in terms of the Allen Interval Algebra. Informally, the 3 bins we care about are 'direct', 'indirect' or overlapping. Note that all causal relations should be classified under a RO temporal relation (see the branch under 'temporally related to'). Note that all causal relations are temporal, but not all temporal relations are causal. Two occurrents can be related in time without being causally connected. We take causal influence to be primitive, elucidated as being such that has the upstream changed, some qualities of the donwstream would necessarily be modified. For the second, we consider a relationship to be regulatory if the system in which the activities occur is capable of altering the relationship to achieve some objective. This could include changing the rate of production of a molecule. For the third, we consider the effect of the upstream process on the output(s) of the downstream process. If the level of output is increased, or the rate of production of the output is increased, then the direction is increased. Direction can be positive, negative or neutral or capable of either direction. Two positives in succession yield a positive, two negatives in succession yield a positive, otherwise the default assumption is that the net effect is canceled and the influence is neutral. Each of these 3 primitives can be composed to yie…
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000232: Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.

Axiom
annotated source: causally related to
annotated property: definition
annotated target: relation that links two events, processes, states, or objects such that one event, process, state, or object (a cause) contributes to the production of another event, process, state, or object (an effect) where the cause is partly or wholly responsible for the effect, and the effect is partly or wholly dependent on the cause.
database_cross_reference: https://en.wikipedia.org/wiki/Causality

causally upstream of or within
type: ObjectProperty
sub property of: causal relation between processes
inverse of: causally downstream of or within
type: TransitiveProperty
property chain axiom: part of
definition: p is 'causally upstream or within' q iff p is causally related to q, and the end of p precedes, or is coincident with, the end of q.
IAO_0000116: We would like to make this disjoint with 'preceded by', but this is prohibited in OWL2
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000118: influences (processual)
has related synonym: affects

causally downstream of or within
type: ObjectProperty
sub property of: causal relation between processes
type: TransitiveProperty
definition: inverse of causally upstream of or within
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000119: causal-relations
in subset: RO_0002259

composed primarily of
type: ObjectProperty
sub property of: has part
domain: BFO_0000040
range: BFO_0000040
IAO_0000112: 'otolith organ' SubClassOf 'composed primarily of' some 'calcium carbonate'
definition: x composed_primarily_of y if and only if more than half of the mass of x is made from y or units of the same type as y.
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000119: http://www.ncbi.nlm.nih.gov/pubmed/22293552
RO_0001900: RO_0001901
in subset: ro-eco

relation between physical entity and a process or stage
type: ObjectProperty
domain: BFO_0000004
range: BFO_0000003
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000232: Do not use this relation directly. It is ended as a grouping for a diverse set of relations, typically connecting an anatomical entity to a biological process or developmental stage.

existence overlaps
type: ObjectProperty
sub property of: relation between physical entity and a process or stage
definition: x existence overlaps y if and only if either (a) the start of x is part of y or (b) the end of x is part of y. Formally: x existence starts and ends during y iff (α(x) >= α(y) & α(x) <= ω(y)) OR (ω(x) <= ω(y) & ω(x) >= α(y))
IAO_0000117: https://orcid.org/0000-0002-6601-2165
comment: The relations here were created based on work originally by Fabian Neuhaus and David Osumi-Sutherland. The work has not yet been vetted and errors in definitions may have occurred during transcription.

causal agent in process
type: ObjectProperty
sub property of: causal relation between material entity and a process
inverse of: process has causal agent
definition: A relationship between a material entity and a process where the material entity has some causal role that influences the process
IAO_0000119: causal-relations

causal relation between processes
type: ObjectProperty
sub property of: causally related to
domain: BFO_0000003
range: BFO_0000003
definition: p is causally related to q if and only if p or any part of p and q or any part of q are linked by a chain of events where each event pair is one where the execution of p influences the execution of q. p may be upstream, downstream, part of, or a container of q.
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000119: causal-relations
IAO_0000232: Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.

depends on
type: ObjectProperty
IAO_0000117: https://orcid.org/0000-0002-6601-2165

has part structure that is capable of
type: ObjectProperty
sub property of: functionally related to
sub property of: causal relation between material entity and a process
property chain axiom: has part
property chain axiom: capable of
IAO_0000112: gland SubClassOf 'has part structure that is capable of' some 'secretion by cell'
definition: s 'has part structure that is capable of' p if and only if there exists some part x such that s 'has part' x and x 'capable of' p
IAO_0000117: https://orcid.org/0000-0002-6601-2165

causal relation between material entity and a process
type: ObjectProperty
sub property of: causally related to
domain: BFO_0000040
range: BFO_0000015
definition: A relationship that holds between a material entity and a process in which causality is involved, with either the material entity or some part of the material entity exerting some influence over the process, or the process influencing some aspect of the material entity.
IAO_0000116: Do not use this relation directly. It is intended as a grouping for a diverse set of relations, all involving cause and effect.
IAO_0000117: https://orcid.org/0000-0002-6601-2165
IAO_0000119: causal-relations

process has causal agent
type: ObjectProperty
sub property of: causally related to
definition: Inverse of 'causal agent in process'
IAO_0000119: causal-relations

generically depends on
type: ObjectProperty
inverse of: is carrier of
domain: BFO_0000031
range: BFO_0000004
property chain axiom: characteristic of
property chain axiom: is concretized as
IAO_0000112: Genetic information generically depend on molecules of DNA.
IAO_0000112: The novel *War and Peace* generically depends on this copy of the novel.
IAO_0000112: The pattern shared by chess boards generically depends on any chess board.
IAO_0000112: The score of a symphony g-depends on a copy of the score.
IAO_0000112: This pdf file generically depends on this server.
definition: A generically dependent continuant *b* generically depends on an independent continuant *c* at time *t* means: there inheres in *c* a specifically deendent continuant which concretizes *b* at *t*.
IAO_0000119: [072-ISO]
has exact synonym: g-depends on

is carrier of
type: ObjectProperty
domain: BFO_0000004
range: BFO_0000031
property chain axiom: concretizes
property chain axiom: has characteristic
IAO_0000112: Molecules of DNA are carriers of genetic information.
IAO_0000112: This copy of *War and Peace* is carrier of the novel written by Tolstoy.
IAO_0000112: This hard drive is carrier of these data items.
definition: *b* is carrier of *c* at time *t* if and only if *c* *g-depends on* *b* at *t*
IAO_0000119: [072-ISO]

device utilizes material
type: ObjectProperty
property chain axiom: capable of
property chain axiom: has input
IAO_0000112: A diagnostic testing device utilizes a specimen.
definition: X device utilizes material Y means X and Y are material entities, and X is capable of some process P that has input Y.
IAO_0000232: A diagnostic testing device utilizes a specimen means that the diagnostic testing device is capable of an assay, and this assay a specimen as its input.
IAO_0000232: See github ticket https://github.com/oborel/obo-relations/issues/497
contributor: https://orcid.org/0000-0001-9625-1899
contributor: https://orcid.org/0000-0003-2620-0345
creation date: 2021-11-08T12:00:00Z
has broad synonym: utilizes

is neuron
type: ObjectProperty
domain: CL_0000540
definition: This property only applies to neurons
contributor: https://orcid.org/0000-0001-6677-8489
date: 2024-10-23T14:34:52Z

is anatomical entity
type: ObjectProperty
domain: anatomical entity
definition: This property only applies to anatomical entities.
contributor: https://orcid.org/0000-0001-6677-8489
date: 2024-10-29T09:55:07Z

has assay method
type: ObjectProperty
sub property of: topObjectProperty
inverse of: is assay method of

is assay method of
type: ObjectProperty
sub property of: topObjectProperty

CL_0000540
type: Class
equivalent class: Restriction
  on property: is neuron
  has self: true

germ layer derivative
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: develops from
    some values from: germ layer
subclass of: anatomical entity
subclass of: Restriction
  on property: develops from
  some values from: germ layer
definition: Any anatomical entity (FBbt:10000000) that develops from some germ layer (FBbt:00000110).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000000
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: germ layer derivative
annotated property: definition
annotated target: Any anatomical entity (FBbt:10000000) that develops from some germ layer (FBbt:00000110).
database_cross_reference: FlyBase:FBrf0043441
database_cross_reference: FlyBase:FBrf0053832

organism
type: Class
subclass of: multicellular structure
definition: An individual member of the species Drosophila melanogaster.
database_cross_reference: CARO:0000012
database_cross_reference: NCBITaxon:7227
database_cross_reference: UBERON:0000468
has OBO namespace: fly_anatomy.ontology
has related synonym: Drosophila
has related synonym: whole organism
id: FBbt:00000001
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: organism
annotated property: definition
annotated target: An individual member of the species Drosophila melanogaster.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

tagma
type: Class
subclass of: anterior-posterior subdivision of organism
subclass of: Restriction
  on property: part of
  some values from: organism
definition: One of the three main divisions of the whole organism formed from groups of segments.
database_cross_reference: UBERON:6000002
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000002
in subset: FB gloss
in subset: cur
in subset: larval OF

Axiom
annotated source: tagma
annotated property: definition
annotated target: One of the three main divisions of the whole organism formed from groups of segments.
database_cross_reference: FBC:GG

segment
type: Class
subclass of: anterior-posterior subdivision of organism
definition: One of the repeated divisions of the whole organism.
database_cross_reference: UBERON:0000914
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000003
in subset: FB gloss
in subset: cur
in subset: larval OF

Axiom
annotated source: segment
annotated property: definition
annotated target: One of the repeated divisions of the whole organism.
database_cross_reference: FBC:GG

abdomen
type: Class
subclass of: tagma
definition: The most posterior of the three tagma (FBbt:00000002).
database_cross_reference: UBERON:6000020
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000020
in subset: FB gloss
in subset: cur

Axiom
annotated source: abdomen
annotated property: definition
annotated target: The most posterior of the three tagma (FBbt:00000002).
database_cross_reference: FlyBase:FBrf0166419

abdominal segment
type: Class
equivalent class: Class
  intersection of: segment
  intersection of: Restriction
    on property: part of
    some values from: abdomen
subclass of: segment
subclass of: Restriction
  on property: part of
  some values from: abdomen
definition: Metameric subdivision of the abdomen.
database_cross_reference: UBERON:6000021
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000021
in subset: cur

Axiom
annotated source: abdominal segment
annotated property: definition
annotated target: Metameric subdivision of the abdomen.
database_cross_reference: FBC:SPR

abdominal segment 11
type: Class
subclass of: terminal segment
subclass of: Restriction
  on property: part of
  some values from: telson
definition: Eleventh most anterior segment of the abdomen.
has OBO namespace: fly_anatomy.ontology
has related synonym: a11
id: FBbt:00000032
in subset: cur

Axiom
annotated source: abdominal segment 11
annotated property: definition
annotated target: Eleventh most anterior segment of the abdomen.
database_cross_reference: https://orcid.org/0000-0002-1373-1705

telson
type: Class
subclass of: anterior-posterior subdivision of organism
subclass of: Restriction
  on property: part of
  some values from: abdomen
definition: Dorsal portion of the eighth segment and all structures posterior to it (Pignoni et al., 1992).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000033
in subset: cur

Axiom
annotated source: telson
annotated property: definition
annotated target: Dorsal portion of the eighth segment and all structures posterior to it (Pignoni et al., 1992).
database_cross_reference: FlyBase:FBrf0055857

egg
type: Class
subclass of: anatomical structure
subclass of: Restriction
  on property: develops from
  some values from: oocyte
definition: Structure that develops from an oocyte once it has been released from the ovary by ovulation (Qazi et al., 2003). Ovulation triggers egg activation, which alters envelope permeability and causes the resumption of meiosis and translation (Qazi et al., 2003). Fertilization of the egg begins embryogenesis (Loppin et al., 2015).
has exact synonym: ovum
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000034
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: egg
annotated property: hasExactSynonym
annotated target: ovum
database_cross_reference: FlyBase:FBrf0158848

Axiom
annotated source: egg
annotated property: definition
annotated target: Structure that develops from an oocyte once it has been released from the ovary by ovulation (Qazi et al., 2003). Ovulation triggers egg activation, which alters envelope permeability and causes the resumption of meiosis and translation (Qazi et al., 2003). Fertilization of the egg begins embryogenesis (Loppin et al., 2015).
database_cross_reference: FlyBase:FBrf0158848
database_cross_reference: FlyBase:FBrf0229233

embryo
type: Class
subclass of: organism
definition: An organism that is undergoing embryogenesis (Campos-Ortega and Hartenstein, 1997). Embryogenesis begins with a fertilized egg, and finishes with hatching at the end of embryonic stage 17 (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FBdv:00005289
database_cross_reference: UBERON:0000922
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000052
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryo
annotated property: definition
annotated target: An organism that is undergoing embryogenesis (Campos-Ortega and Hartenstein, 1997). Embryogenesis begins with a fertilized egg, and finishes with hatching at the end of embryonic stage 17 (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0039741
database_cross_reference: FlyBase:FBrf0089570

cleavage stage embryo
type: Class
subclass of: embryo
definition: Embryo that is in the cleavage stage, which encompasses the first 13 rapid divisions after fertilization, corresponding to embryonic stages 1-4, prior to cellularization (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997). The first seven divisions are synchronous (Campos-Ortega and Hartenstein, 1997). During the course of the subsequent three divisions, most of the nuclei approach the surface, to form the syncitial blastoderm (Campos-Ortega and Hartenstein, 1997). They then divide asynchronously a further three times, bringing the total number of cells to around 5000 (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FBdv:00000054
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000054

Axiom
annotated source: cleavage stage embryo
annotated property: definition
annotated target: Embryo that is in the cleavage stage, which encompasses the first 13 rapid divisions after fertilization, corresponding to embryonic stages 1-4, prior to cellularization (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997). The first seven divisions are synchronous (Campos-Ortega and Hartenstein, 1997). During the course of the subsequent three divisions, most of the nuclei approach the surface, to form the syncitial blastoderm (Campos-Ortega and Hartenstein, 1997). They then divide asynchronously a further three times, bringing the total number of cells to around 5000 (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0064803
database_cross_reference: FlyBase:FBrf0089570

yolk nucleus
type: Class
subclass of: extraembryonic structure
subclass of: cell component
definition: Nucleus that stays behind in the yolky interior of the syncytial embryo following the migration of a subset of nuclei to the periphery from cycle 8. There are around 50 of these nuclei. Yolk nuclei cease dividing in cycle 10 and become polyploid.
has exact synonym: vitellophage
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000057
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: yolk nucleus
annotated property: definition
annotated target: Nucleus that stays behind in the yolky interior of the syncytial embryo following the migration of a subset of nuclei to the periphery from cycle 8. There are around 50 of these nuclei. Yolk nuclei cease dividing in cycle 10 and become polyploid.
database_cross_reference: FlyBase:FBrf0064779
database_cross_reference: FlyBase:FBrf0089570

Axiom
annotated source: yolk nucleus
annotated property: hasExactSynonym
annotated target: vitellophage
database_cross_reference: FlyBase:FBrf0089570

pole bud
type: Class
subclass of: cell component
subclass of: Restriction
  on property: part of
  some values from: syncytial blastoderm embryo
subclass of: Restriction
  on property: develops from
  some values from: pole plasm
definition: Cytoplasmic bud that forms at the posterior pole of the embryo during cycle 9. Pole buds give rise to the pole cells.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000091
in subset: cur

Axiom
annotated source: pole bud
annotated property: definition
annotated target: Cytoplasmic bud that forms at the posterior pole of the embryo during cycle 9. Pole buds give rise to the pole cells.
database_cross_reference: FlyBase:FBrf0064779

primordial germ cell
type: Class
subclass of: germline cell
subclass of: Restriction
  on property: develops from
  some values from: embryonic pole cell
subclass of: Restriction
  on property: expresses
  some values from: FBgn0283442
definition: Cell that begins as a pole cell, becomes incorporated into the gonad and can develop into a germline stem cell (Campos-Ortega and Hartenstein, 1997; Dansereau and Lasko, 2008; Slaidina et al., 2020).
has broad synonym: GC
database_cross_reference: CL:0000301
has exact synonym: PGC
has OBO namespace: fly_anatomy.ontology
has related synonym: pole cell
id: FBbt:00000092
in subset: FB gloss
in subset: cur
comment: Can be identified in the larva by expression of vasa (Slaidina et al., 2020). Only a small subset of pole cells can become germ cells and this fate might be specified by the time the posterior midgut primordium invaginates (Okada, 1998).

Axiom
annotated source: primordial germ cell
annotated property: definition
annotated target: Cell that begins as a pole cell, becomes incorporated into the gonad and can develop into a germline stem cell (Campos-Ortega and Hartenstein, 1997; Dansereau and Lasko, 2008; Slaidina et al., 2020).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0101973
database_cross_reference: FlyBase:FBrf0216027
database_cross_reference: FlyBase:FBrf0244767

Axiom
annotated source: primordial germ cell
annotated property: hasBroadSynonym
annotated target: GC
database_cross_reference: FlyBase:FBrf0244767

amnioserosa
type: Class
subclass of: extraembryonic structure
subclass of: squamous epithelium
subclass of: dorsal ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: late extended germ band embryo
subclass of: Restriction
  on property: develops from
  some values from: amnioserosa primordium
definition: A squamous epithelial tissue that derives from the dorsal-most region of the cellular blastoderm and that covers the dorsal side of the embryo following germ-band retraction, prior to dorsal closure.
database_cross_reference: UBERON:0010302
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000095
in subset: EmbDevSlim
in subset: FB gloss
in subset: cur

Axiom
annotated source: amnioserosa
annotated property: definition
annotated target: A squamous epithelial tissue that derives from the dorsal-most region of the cellular blastoderm and that covers the dorsal side of the embryo following germ-band retraction, prior to dorsal closure.
database_cross_reference: FlyBase:FBrf0041814
database_cross_reference: FlyBase:FBrf0174479
database_cross_reference: FlyBase:FBrf0244630
database_cross_reference: FlyBase:FBrf0246683

germ band
type: Class
subclass of: developing embryonic structure
definition: Embryonic collection of cells that will give rise to the metameric regions of the embryo, comprising precursors of the gnathal, thoracic and abdominal segments (Campos-Ortega and Hartenstein, 1997).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000102
in subset: FB gloss
in subset: cur

Axiom
annotated source: germ band
annotated property: definition
annotated target: Embryonic collection of cells that will give rise to the metameric regions of the embryo, comprising precursors of the gnathal, thoracic and abdominal segments (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570

mesoderm anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: Restriction
  on property: develops into
  some values from: mesoderm
definition: Contiguous region of early embryonic cells that will invaginate to form the mesoderm during gastrulation (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: UBERON:6000104
has OBO namespace: fly_anatomy.ontology
has related synonym: ventral plate
id: FBbt:00000104
in subset: cur

Axiom
annotated source: mesoderm anlage
annotated property: definition
annotated target: Contiguous region of early embryonic cells that will invaginate to form the mesoderm during gastrulation (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0155831

mesectoderm anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: Restriction
  on property: part of
  some values from: ectoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: mesectoderm
definition: Contiguous region of early embryonic cells of the ectoderm anlage that forms a single-cell border between the anlagen of the mesoderm and ventral ectoderm (Campos-Ortega and Hartenstein, 1997; Stathopoulos and Newcomb, 2020). As the mesoderm invaginates and the ventral furrow closes, the two rows of cells come together to form the mesectoderm at the ventral midline of the embryo (Campos-Ortega and Hartenstein, 1997).
has OBO namespace: fly_anatomy.ontology
has related synonym: AMesEc
has related synonym: mesectoderm ISN
id: FBbt:00000109
in subset: cur

Axiom
annotated source: mesectoderm anlage
annotated property: definition
annotated target: Contiguous region of early embryonic cells of the ectoderm anlage that forms a single-cell border between the anlagen of the mesoderm and ventral ectoderm (Campos-Ortega and Hartenstein, 1997; Stathopoulos and Newcomb, 2020). As the mesoderm invaginates and the ventral furrow closes, the two rows of cells come together to form the mesectoderm at the ventral midline of the embryo (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0155831
database_cross_reference: FlyBase:FBrf0244630

Axiom
annotated source: mesectoderm anlage
annotated property: hasRelatedSynonym
annotated target: mesectoderm ISN
database_cross_reference: FlyBase:FBrf0180108

germ layer
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: portion of tissue
subclass of: Restriction
  on property: develops into
  some values from: germ layer derivative
definition: Complex primordium that is formed during gastrulation (stage 6-7), when anlagen invaginate from the monolayer of the cellular blastoderm (Campos-Ortega and Hartenstein, 1997; Hartenstein, 2004). The invaginated anlagen become organized into the middle two layers of a three-layered tube structure (Campos-Ortega and Hartenstein, 1997). These three layers correspond to the three germ layers of the endoderm, mesoderm and ectoderm (from inner to outer, respectively), with each layer having distinct cell division patterns and cell fates (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: UBERON:0000923
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000110
in subset: EmbDevSlim
in subset: FB gloss
in subset: cur

Axiom
annotated source: germ layer
annotated property: definition
annotated target: Complex primordium that is formed during gastrulation (stage 6-7), when anlagen invaginate from the monolayer of the cellular blastoderm (Campos-Ortega and Hartenstein, 1997; Hartenstein, 2004). The invaginated anlagen become organized into the middle two layers of a three-layered tube structure (Campos-Ortega and Hartenstein, 1997). These three layers correspond to the three germ layers of the endoderm, mesoderm and ectoderm (from inner to outer, respectively), with each layer having distinct cell division patterns and cell fates (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0155831
database_cross_reference: FlyBase:FBrf0178740

ectoderm
type: Class
subclass of: germ layer
subclass of: Restriction
  on property: develops from
  some values from: ectoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: ectodermal derivative
definition: Outermost germ layer of the embryo (Campos-Ortega and Hartenstein, 1997). It is formed from the ectoderm anlage, which includes the cells of the cellular blastoderm monolayer that do not invaginate during gastrulation (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: UBERON:0000924
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000111
in subset: EmbDevSlim
in subset: FB gloss
in subset: cur

Axiom
annotated source: ectoderm
annotated property: definition
annotated target: Outermost germ layer of the embryo (Campos-Ortega and Hartenstein, 1997). It is formed from the ectoderm anlage, which includes the cells of the cellular blastoderm monolayer that do not invaginate during gastrulation (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0155831
database_cross_reference: FlyBase:FBrf0244630

dorsal ectoderm
type: Class
subclass of: multicellular structure
subclass of: Restriction
  on property: part of
  some values from: trunk ectoderm
subclass of: Restriction
  on property: develops from
  some values from: dorsal ectoderm anlage
definition: Dorsal region of the ectoderm. It forms parts of the larval epidermis and the tracheal system, with other parts of these contributed to by the lateral ectoderm (Stathopoulos and Newcomb, 2020).
database_cross_reference: UBERON:6000112
has OBO namespace: fly_anatomy.ontology
has related synonym: AdorEc
has related synonym: dorEc
id: FBbt:00000112
in subset: cur

Axiom
annotated source: dorsal ectoderm
annotated property: definition
annotated target: Dorsal region of the ectoderm. It forms parts of the larval epidermis and the tracheal system, with other parts of these contributed to by the lateral ectoderm (Stathopoulos and Newcomb, 2020).
database_cross_reference: FlyBase:FBrf0244630

anterior ectoderm
type: Class
subclass of: multicellular structure
subclass of: Restriction
  on property: part of
  some values from: ectoderm
subclass of: Restriction
  on property: develops from
  some values from: anterior ectoderm anlage
definition: The region of the ectoderm anterior to the cephalic furrow.
database_cross_reference: UBERON:6000119
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000119
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: anterior ectoderm
annotated property: definition
annotated target: The region of the ectoderm anterior to the cephalic furrow.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

posterior ectoderm
type: Class
subclass of: developing embryonic structure
subclass of: Restriction
  on property: part of
  some values from: trunk ectoderm
subclass of: Restriction
  on property: develops from
  some values from: posterior ectoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: hindgut
definition: Region of the ectoderm found posterior to the dorsal, lateral and ventral regions of the ectoderm and anterior to the posterior endoderm (Stathopoulos and Newcomb, 2020). It forms the hindgut (Stathopoulos and Newcomb, 2020).
has exact synonym: proctodeal ring
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000122
in subset: cur

Axiom
annotated source: posterior ectoderm
annotated property: definition
annotated target: Region of the ectoderm found posterior to the dorsal, lateral and ventral regions of the ectoderm and anterior to the posterior endoderm (Stathopoulos and Newcomb, 2020). It forms the hindgut (Stathopoulos and Newcomb, 2020).
database_cross_reference: FlyBase:FBrf0244630

Axiom
annotated source: posterior ectoderm
annotated property: hasExactSynonym
annotated target: proctodeal ring
database_cross_reference: FlyBase:FBrf0244630

amnioproctodeal invagination
type: Class
subclass of: multicellular structure
subclass of: Restriction
  on property: part of
  some values from: gastrula embryo
definition: The posterior invagination of ectoderm that gives rise to part of the digestive system.
database_cross_reference: UBERON:0000931
has OBO namespace: fly_anatomy.ontology
has related synonym: posterior midgut invagination
id: FBbt:00000123
in subset: FB gloss
in subset: cur

Axiom
annotated source: amnioproctodeal invagination
annotated property: definition
annotated target: The posterior invagination of ectoderm that gives rise to part of the digestive system.
database_cross_reference: FBC:GG

epithelial cell
type: Class
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: epithelium
definition: Cell that has as its part a cytoskeleton that allows for tight cell to cell contact and which has apical-basal cell polarity.
database_cross_reference: CARO:0000077
database_cross_reference: CL:0000066
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000124
in subset: cur
in subset: scrnaseq slim

Axiom
annotated source: epithelial cell
annotated property: definition
annotated target: Cell that has as its part a cytoskeleton that allows for tight cell to cell contact and which has apical-basal cell polarity.
database_cross_reference: https://orcid.org/0000-0001-9114-8737

endoderm
type: Class
subclass of: germ layer
subclass of: Restriction
  on property: develops from
  some values from: endoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: endodermal derivative
definition: Innermost germ layer of the embryo (Campos-Ortega and Hartenstein, 1997). It is formed by the invagination of two anlagen, those of the anterior and posterior midgut (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: UBERON:0000925
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000125
in subset: FB gloss
in subset: cur

Axiom
annotated source: endoderm
annotated property: definition
annotated target: Innermost germ layer of the embryo (Campos-Ortega and Hartenstein, 1997). It is formed by the invagination of two anlagen, those of the anterior and posterior midgut (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0155831

mesoderm
type: Class
subclass of: germ layer
subclass of: Restriction
  on property: develops from
  some values from: mesoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: mesodermal derivative
definition: Middle germ layer of the embryo (between ectoderm and endoderm) following gastrulation (Campos-Ortega and Hartenstein, 1997). Shortly after its formation, its cells undergo mitosis and it loses its regular epithelial architecture (Campos-Ortega and Hartenstein, 1997). In stage 9 it reorganizes into a regular monolayer of cuboidal cells that lines the ectoderm (Campos-Ortega and Hartenstein, 1997). At the end of stage 10 further cell divisions disrupt this structure and its cells reform into two layers in stage 11 (Campos-Ortega and Hartenstein, 1997). It finally splits up into separate cell masses in late stage 11 (Campos-Ortega and Hartenstein, 1997). Its derivatives include the muscles, heart and fat body (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: UBERON:0000926
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000126
in subset: FB gloss
in subset: cur

Axiom
annotated source: mesoderm
annotated property: definition
annotated target: Middle germ layer of the embryo (between ectoderm and endoderm) following gastrulation (Campos-Ortega and Hartenstein, 1997). Shortly after its formation, its cells undergo mitosis and it loses its regular epithelial architecture (Campos-Ortega and Hartenstein, 1997). In stage 9 it reorganizes into a regular monolayer of cuboidal cells that lines the ectoderm (Campos-Ortega and Hartenstein, 1997). At the end of stage 10 further cell divisions disrupt this structure and its cells reform into two layers in stage 11 (Campos-Ortega and Hartenstein, 1997). It finally splits up into separate cell masses in late stage 11 (Campos-Ortega and Hartenstein, 1997). Its derivatives include the muscles, heart and fat body (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0155831

trunk mesoderm
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: Restriction
  on property: part of
  some values from: germ band
subclass of: Restriction
  on property: part of
  some values from: mesoderm
subclass of: Restriction
  on property: develops from
  some values from: trunk mesoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: trunk mesoderm derivative
definition: Region of mesoderm of that forms a layer interior to the ectoderm of the germ band (Campos-Ortega and Hartenstein, 1997). Following its invagination during ventral furrow formation in stages 6 and 7, it remains a coherent structure with no morphologically apparent subdivisions, apart from transient metamery during stage 9, until stage 11 (Campos-Ortega and Hartenstein, 1997). Its cells divide following invagination and it loses its epithelial integrity, forming a monolayer of cuboidal cells by stage 9 (Campos-Ortega and Hartenstein, 1997). A further division happens during stage 10 leading to two distinct layers by stage 11 (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: UBERON:6000128
has exact synonym: mesoderm of the germ layer
has OBO namespace: fly_anatomy.ontology
has related synonym: AtrunkMes
has related synonym: P2 TrMes
has related synonym: TrMes
id: FBbt:00000128
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: trunk mesoderm
annotated property: definition
annotated target: Region of mesoderm of that forms a layer interior to the ectoderm of the germ band (Campos-Ortega and Hartenstein, 1997). Following its invagination during ventral furrow formation in stages 6 and 7, it remains a coherent structure with no morphologically apparent subdivisions, apart from transient metamery during stage 9, until stage 11 (Campos-Ortega and Hartenstein, 1997). Its cells divide following invagination and it loses its epithelial integrity, forming a monolayer of cuboidal cells by stage 9 (Campos-Ortega and Hartenstein, 1997). A further division happens during stage 10 leading to two distinct layers by stage 11 (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570

Axiom
annotated source: trunk mesoderm
annotated property: hasExactSynonym
annotated target: mesoderm of the germ layer
database_cross_reference: FlyBase:FBrf0089570

Axiom
annotated source: trunk mesoderm
annotated property: hasRelatedSynonym
annotated target: P2 TrMes
database_cross_reference: https://orcid.org/0000-0002-7073-9172

somatic trunk mesoderm
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: Restriction
  on property: part of
  some values from: trunk mesoderm
definition: Outer layer of the trunk mesoderm that arises due to mitosis at the end of stage 10 (Campos-Ortega and Hartenstein, 1997). It will give rise to the segmentally-repeated body wall muscles and the fat body (Campos-Ortega and Hartenstein, 1997).
has OBO namespace: fly_anatomy.ontology
has related synonym: somatopleura
id: FBbt:00000129
in subset: cur

Axiom
annotated source: somatic trunk mesoderm
annotated property: definition
annotated target: Outer layer of the trunk mesoderm that arises due to mitosis at the end of stage 10 (Campos-Ortega and Hartenstein, 1997). It will give rise to the segmentally-repeated body wall muscles and the fat body (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570

Axiom
annotated source: somatic trunk mesoderm
annotated property: hasRelatedSynonym
annotated target: somatopleura
database_cross_reference: FlyBase:FBrf0089570

mesectoderm
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: Restriction
  on property: part of
  some values from: ectoderm
subclass of: Restriction
  on property: develops from
  some values from: mesectoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: mesectodermal derivative
definition: A double row of cells located at the midline from the end of gastrulation when the mesectoderm anlage of either side meet at the midline (Campos-Ortega and Hartenstein, 1997). Initially there are approximately eight cells per segment, which soon divide to become approximately 16 cells, but these do not have a clear metameric organization at this stage (Campos-Ortega and Hartenstein, 1997; Kearney et al., 2004). These cells become elongated during stage 8, so that one end remains exposed to the outside of the embryo at the midline, in line with the ectoderm, while the other end maintains contact with the mesoderm (Campos-Ortega and Hartenstein, 1997).
has broad synonym: mesectoderm anlage
database_cross_reference: UBERON:0000927
has OBO namespace: fly_anatomy.ontology
has related synonym: MesEc
id: FBbt:00000136
in subset: cur

Axiom
annotated source: mesectoderm
annotated property: definition
annotated target: A double row of cells located at the midline from the end of gastrulation when the mesectoderm anlage of either side meet at the midline (Campos-Ortega and Hartenstein, 1997). Initially there are approximately eight cells per segment, which soon divide to become approximately 16 cells, but these do not have a clear metameric organization at this stage (Campos-Ortega and Hartenstein, 1997; Kearney et al., 2004). These cells become elongated during stage 8, so that one end remains exposed to the outside of the embryo at the midline, in line with the ectoderm, while the other end maintains contact with the mesoderm (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0180108
database_cross_reference: FlyBase:FBrf0195284
database_cross_reference: FlyBase:FBrf0244630

Axiom
annotated source: mesectoderm
annotated property: hasBroadSynonym
annotated target: mesectoderm anlage
database_cross_reference: FlyBase:FBrf0180108

embryonic tagma
type: Class
equivalent class: Class
  intersection of: tagma
  intersection of: Restriction
    on property: overlaps
    some values from: embryo
subclass of: tagma
subclass of: Restriction
  on property: part of
  some values from: embryo
definition: Any tagma of the embryo.
database_cross_reference: UBERON:6000137
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000137
in subset: cur

Axiom
annotated source: embryonic tagma
annotated property: definition
annotated target: Any tagma of the embryo.
database_cross_reference: FBC:Autogenerated

embryonic segment
type: Class
equivalent class: Class
  intersection of: segment
  intersection of: Restriction
    on property: overlaps
    some values from: embryo
subclass of: segment
subclass of: Restriction
  on property: part of
  some values from: embryo
definition: Any segment of the embryo.
database_cross_reference: UBERON:6000154
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000154
in subset: cur

Axiom
annotated source: embryonic segment
annotated property: definition
annotated target: Any segment of the embryo.
database_cross_reference: FBC:Autogenerated

embryonic abdomen
type: Class
equivalent class: Class
  intersection of: abdomen
  intersection of: Restriction
    on property: overlaps
    some values from: embryo
subclass of: abdomen
subclass of: embryonic tagma
definition: Abdomen of the embryo.
database_cross_reference: UBERON:6000171
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000171
in subset: cur

Axiom
annotated source: embryonic abdomen
annotated property: definition
annotated target: Abdomen of the embryo.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

embryonic abdominal segment
type: Class
equivalent class: Class
  intersection of: abdominal segment
  intersection of: Restriction
    on property: overlaps
    some values from: embryo
subclass of: abdominal segment
subclass of: embryonic segment
subclass of: Restriction
  on property: part of
  some values from: embryonic abdomen
definition: Metameric subdivision of the embryonic abdomen.
database_cross_reference: UBERON:6000172
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000172
in subset: cur

Axiom
annotated source: embryonic abdominal segment
annotated property: definition
annotated target: Metameric subdivision of the embryonic abdomen.
database_cross_reference: FBC:SPR

embryonic abdominal segment 11
type: Class
equivalent class: Class
  intersection of: abdominal segment 11
  intersection of: Restriction
    on property: overlaps
    some values from: embryo
subclass of: abdominal segment 11
subclass of: embryonic terminal segment
subclass of: Restriction
  on property: part of
  some values from: embryonic telson
definition: Any abdominal segment 11 of the embryo.
has OBO namespace: fly_anatomy.ontology
has related synonym: a11
id: FBbt:00000183
in subset: cur

Axiom
annotated source: embryonic abdominal segment 11
annotated property: definition
annotated target: Any abdominal segment 11 of the embryo.
database_cross_reference: FBC:Autogenerated

embryonic telson
type: Class
equivalent class: Class
  intersection of: telson
  intersection of: Restriction
    on property: overlaps
    some values from: embryo
subclass of: telson
subclass of: Restriction
  on property: part of
  some values from: embryonic abdomen
definition: Any telson of the embryo.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000184
in subset: cur

Axiom
annotated source: embryonic telson
annotated property: definition
annotated target: Any telson of the embryo.
database_cross_reference: FBC:Autogenerated

larval tracheal system
type: Class
equivalent class: Class
  intersection of: tracheal system
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: tracheal system
subclass of: Restriction
  on property: part of
  some values from: larva
subclass of: Restriction
  on property: develops from
  some values from: presumptive embryonic/larval tracheal system
definition: Tracheal system of the late embryo or larva. The three larval instars retain the same basic pattern of the tracheal system, but with increasing complexity of branch trachea. It is composed of ten tracheal metameres.
has alternative id: FBbt:00005570
has exact synonym: embryonic/larval tracheal system
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000185
in subset: cur

Axiom
annotated source: larval tracheal system
annotated property: definition
annotated target: Tracheal system of the late embryo or larva. The three larval instars retain the same basic pattern of the tracheal system, but with increasing complexity of branch trachea. It is composed of ten tracheal metameres.
database_cross_reference: FlyBase:FBrf0034081

presumptive embryonic/larval digestive system
type: Class
subclass of: presumptive embryonic/larval system
definition: The sum of all the structures in the embryo that will develop into the embryonic/larval digestive system.
has OBO namespace: fly_anatomy.ontology
has related synonym: embryonic digestive system
id: FBbt:00000438
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: presumptive embryonic/larval digestive system
annotated property: definition
annotated target: The sum of all the structures in the embryo that will develop into the embryonic/larval digestive system.
database_cross_reference: FlyBase:FBrf0007733
database_cross_reference: FlyBase:FBrf0064792
database_cross_reference: FlyBase:FBrf0076136

Axiom
annotated source: presumptive embryonic/larval digestive system
annotated property: hasRelatedSynonym
annotated target: embryonic digestive system
database_cross_reference: https://orcid.org/0000-0002-7073-9172

hindgut proper primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: posterior ectoderm derivative
subclass of: Class
  intersection of: Restriction
    on property: develops into
    some values from: small intestine primordium
  intersection of: Restriction
    on property: develops into
    some values from: large intestine primordium
  intersection of: Restriction
    on property: develops into
    some values from: rectum primordium
  intersection of: Restriction
    on property: develops into
    some values from: embryonic primordium of adult hindgut precursor
subclass of: Restriction
  on property: part of
  some values from: early extended germ band embryo
subclass of: Restriction
  on property: develops from
  some values from: inclusive hindgut primordium
definition: A(n) primordium that develops into some rectum primordium and some large intestine primordium and some small intestine primordium and some embryonic primordium of adult hindgut precursor. It develops from some inclusive hindgut primordium.
has OBO namespace: fly_anatomy.ontology
has related synonym: P2 pHiGP
has related synonym: pHiGP2
id: FBbt:00000441
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: hindgut proper primordium
annotated property: definition
annotated target: A(n) primordium that develops into some rectum primordium and some large intestine primordium and some small intestine primordium and some embryonic primordium of adult hindgut precursor. It develops from some inclusive hindgut primordium.
database_cross_reference: FBC:Autogenerated

Axiom
annotated source: hindgut proper primordium
annotated property: hasRelatedSynonym
annotated target: P2 pHiGP
database_cross_reference: https://orcid.org/0000-0002-7073-9172

Malpighian tubule primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: posterior ectoderm derivative
subclass of: Class
  intersection of: Restriction
    on property: develops into
    some values from: Malpighian tubule main body primordium
  intersection of: Restriction
    on property: develops into
    some values from: Malpighian tubule tip cell primordium
subclass of: Restriction
  on property: part of
  some values from: early extended germ band embryo
subclass of: Restriction
  on property: develops from
  some values from: inclusive hindgut primordium
definition: A(n) primordium that develops into some Malpighian tubule tip cell primordium and some Malpighian tubule main body primordium. It develops from some inclusive hindgut primordium.
has OBO namespace: fly_anatomy.ontology
has related synonym: MTP2
has related synonym: P2 MalT
id: FBbt:00000442
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: Malpighian tubule primordium
annotated property: definition
annotated target: A(n) primordium that develops into some Malpighian tubule tip cell primordium and some Malpighian tubule main body primordium. It develops from some inclusive hindgut primordium.
database_cross_reference: FBC:Autogenerated

Axiom
annotated source: Malpighian tubule primordium
annotated property: hasRelatedSynonym
annotated target: P2 MalT
database_cross_reference: https://orcid.org/0000-0002-7073-9172

posterior endoderm anlage
type: Class
subclass of: endoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: posterior endoderm
definition: Region of cells of the early embryo that will invaginate from the posterior dorsal embryo during gastrulation to form the posterior part of the endoderm (Campos-Ortega and Hartenstein, 1997). It is a precursor to the posterior midgut (Campos-Ortega and Hartenstein, 1997).
has exact synonym: posterior midgut anlage
has OBO namespace: fly_anatomy.ontology
has related synonym: Asn/A postEndo
id: FBbt:00000447
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: posterior endoderm anlage
annotated property: definition
annotated target: Region of cells of the early embryo that will invaginate from the posterior dorsal embryo during gastrulation to form the posterior part of the endoderm (Campos-Ortega and Hartenstein, 1997). It is a precursor to the posterior midgut (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570

Axiom
annotated source: posterior endoderm anlage
annotated property: hasExactSynonym
annotated target: posterior midgut anlage
database_cross_reference: FlyBase:FBrf0089570

Axiom
annotated source: posterior endoderm anlage
annotated property: hasRelatedSynonym
annotated target: Asn/A postEndo
database_cross_reference: https://orcid.org/0000-0002-7073-9172

larval muscle system
type: Class
equivalent class: Class
  intersection of: muscle system
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: muscle system
subclass of: Restriction
  on property: part of
  some values from: larva
subclass of: Restriction
  on property: develops from
  some values from: presumptive embryonic/larval muscle system
definition: Muscle system of the larva.
has alternative id: FBbt:00005648
has exact synonym: embryonic/larval muscle system
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000462
in subset: cur

Axiom
annotated source: larval muscle system
annotated property: definition
annotated target: Muscle system of the larva.
database_cross_reference: FlyBase:FBrf0031016
database_cross_reference: FlyBase:FBrf0041814
database_cross_reference: FlyBase:FBrf0044229
database_cross_reference: FlyBase:FBrf0064793

embryonic myoblast
type: Class
subclass of: developing embryonic structure
subclass of: myoblast
subclass of: Restriction
  on property: part of
  some values from: presumptive embryonic/larval muscle system
definition: Muscle progenitor cell of the embryo. Prior to myoblast fusion, two types can be distinguished: fusion competent and muscle founder cells.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000463
in subset: cur

Axiom
annotated source: embryonic myoblast
annotated property: definition
annotated target: Muscle progenitor cell of the embryo. Prior to myoblast fusion, two types can be distinguished: fusion competent and muscle founder cells.
database_cross_reference: FlyBase:FBrf0217289

larval somatic muscle cell
type: Class
equivalent class: Class
  intersection of: muscle cell
  intersection of: Restriction
    on property: part of
    some values from: larval somatic muscle
subclass of: somatic muscle cell
subclass of: larval muscle cell
subclass of: Restriction
  on property: part of
  some values from: larval somatic muscle
subclass of: Restriction
  on property: develops from
  some values from: embryonic somatic muscle cell
definition: Any muscle cell (FBbt:00005074) that is part of some larval somatic muscle (FBbt:00058297).
has alternative id: FBbt:00005650
has exact synonym: embryonic/larval skeletal muscle cell
has exact synonym: embryonic/larval somatic muscle cell
has exact synonym: larval skeletal muscle cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00000464
in subset: cur

Axiom
annotated source: larval somatic muscle cell
annotated property: definition
annotated target: Any muscle cell (FBbt:00005074) that is part of some larval somatic muscle (FBbt:00058297).
database_cross_reference: FBC:Autogenerated

larval apodeme
type: Class
equivalent class: Class
  intersection of: apodeme
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: apodeme
subclass of: Restriction
  on property: part of
  some values from: larval integumentary system
definition: Apodeme that is part of the late embryo/larva. Apodemes are not a continuous structure, but are split into two halves. In the embryo, this break is visible laterally. In the larva, the dorsal and ventral halves in the thoracic and abdominal segments are staggered, with the dorsal part being posterior to the ventral one.
has exact synonym: embryonic/larval apodeme
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001005
in subset: cur

Axiom
annotated source: larval apodeme
annotated property: definition
annotated target: Apodeme that is part of the late embryo/larva. Apodemes are not a continuous structure, but are split into two halves. In the embryo, this break is visible laterally. In the larva, the dorsal and ventral halves in the thoracic and abdominal segments are staggered, with the dorsal part being posterior to the ventral one.
database_cross_reference: FBC:SPR
database_cross_reference: FlyBase:FBrf0089570

larval abdominal apodeme
type: Class
equivalent class: Class
  intersection of: abdominal apodeme
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: larval apodeme
subclass of: abdominal apodeme
definition: Any abdominal apodeme of the larva.
has exact synonym: embryonic/larval abdominal apodeme
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001006
in subset: cur

Axiom
annotated source: larval abdominal apodeme
annotated property: definition
annotated target: Any abdominal apodeme of the larva.
database_cross_reference: FBC:Autogenerated

larval visceral muscle cell
type: Class
equivalent class: Class
  intersection of: visceral muscle cell
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: visceral muscle cell
subclass of: larval muscle cell
definition: Muscle cell of a muscle of the embryonic/larval intestinal tract. Circular and longitudinal fibers surround the entire intestinal tract, with the exception of the recurrent layer of the proventriculus. The circular fibers derive from a bilaterally symmetrical band of mesodermal cells extending continuously throughout most of the germ band. The longitudinal fibers derive from clusters of mesodermal cells which appear during stage 12 at the posterior end of the embryo and migrate anteriorly.
has alternative id: FBbt:00005654
has exact synonym: embryonic/larval visceral muscle cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001035
in subset: cur

Axiom
annotated source: larval visceral muscle cell
annotated property: definition
annotated target: Muscle cell of a muscle of the embryonic/larval intestinal tract. Circular and longitudinal fibers surround the entire intestinal tract, with the exception of the recurrent layer of the proventriculus. The circular fibers derive from a bilaterally symmetrical band of mesodermal cells extending continuously throughout most of the germ band. The longitudinal fibers derive from clusters of mesodermal cells which appear during stage 12 at the posterior end of the embryo and migrate anteriorly.
database_cross_reference: FlyBase:FBrf0064793
database_cross_reference: FlyBase:FBrf0089570

presumptive embryonic/larval nervous system
type: Class
subclass of: presumptive embryonic/larval system
definition: The sum of all the structures in the embryo that will develop into the embryonic/larval nervous system.
database_cross_reference: UBERON:6001055
has OBO namespace: fly_anatomy.ontology
has related synonym: embryonic nervous system
id: FBbt:00001055
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: presumptive embryonic/larval nervous system
annotated property: definition
annotated target: The sum of all the structures in the embryo that will develop into the embryonic/larval nervous system.
database_cross_reference: FlyBase:FBrf0031012

Axiom
annotated source: presumptive embryonic/larval nervous system
annotated property: hasRelatedSynonym
annotated target: embryonic nervous system
database_cross_reference: https://orcid.org/0000-0002-7073-9172

neurogenic region
type: Class
subclass of: developing embryonic structure
subclass of: Restriction
  on property: part of
  some values from: ectoderm
definition: Region that gives rise to the neuroblasts of the central nervous system (Bossing et al., 1996). An anterior region (procephalic neurogenic region) gives rise to the brain and a posterior, ventral region (ventral neuroectoderm) gives rise to the ventral nerve cord and gnathal ganglia (Bossing et al., 1996).
database_cross_reference: UBERON:0002346
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001057
in subset: cur

Axiom
annotated source: neurogenic region
annotated property: definition
annotated target: Region that gives rise to the neuroblasts of the central nervous system (Bossing et al., 1996). An anterior region (procephalic neurogenic region) gives rise to the brain and a posterior, ventral region (ventral neuroectoderm) gives rise to the ventral nerve cord and gnathal ganglia (Bossing et al., 1996).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0090460
database_cross_reference: FlyBase:FBrf0098344

ventral neurectoderm
type: Class
subclass of: neurogenic region
subclass of: epithelium
subclass of: Restriction
  on property: part of
  some values from: ventral ectoderm
definition: The ventrally/medially located ectodermal region of the trunk from which neuroblasts delaminate to form the ventral nerve cord and gnathal ganglia. This region becomes distinct during stage 8 when its cells become enlarged compared to those in the adjacent dorsal ectoderm.
has alternative id: FBbt:00000113
has exact synonym: P2 VenEc
has exact synonym: VenEc
has exact synonym: vNR
has exact synonym: ventral neurogenic region
has OBO namespace: fly_anatomy.ontology
has related synonym: neurectoderm
has related synonym: neuroectoderm
id: FBbt:00001061
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: ventral neurectoderm
annotated property: definition
annotated target: The ventrally/medially located ectodermal region of the trunk from which neuroblasts delaminate to form the ventral nerve cord and gnathal ganglia. This region becomes distinct during stage 8 when its cells become enlarged compared to those in the adjacent dorsal ectoderm.
database_cross_reference: FlyBase:FBrf0076117
database_cross_reference: FlyBase:FBrf0089570

Axiom
annotated source: ventral neurectoderm
annotated property: hasExactSynonym
annotated target: vNR
database_cross_reference: FlyBase:FBrf0090460

Axiom
annotated source: ventral neurectoderm
annotated property: hasExactSynonym
annotated target: ventral neurogenic region
database_cross_reference: FlyBase:FBrf0090460

embryonic glioblast
type: Class
equivalent class: Class
  intersection of: glioblast
  intersection of: Restriction
    on property: overlaps
    some values from: embryo
subclass of: embryonic neuroblast
subclass of: glioblast
definition: Glioblast of the embryo.
database_cross_reference: VFB:FBbt_00001244
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001244
in subset: cur

Axiom
annotated source: embryonic glioblast
annotated property: definition
annotated target: Glioblast of the embryo.
database_cross_reference: FlyBase:FBrf0105240

larval glial cell
type: Class
equivalent class: Class
  intersection of: glial cell
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: glial cell
subclass of: Restriction
  on property: part of
  some values from: larval nervous system
definition: Glial cell of the late embryo/larva.
database_cross_reference: VFB:FBbt_00001251
has exact synonym: embryonic/larval glial cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001251
in subset: cur

Axiom
annotated source: larval glial cell
annotated property: definition
annotated target: Glial cell of the late embryo/larva.
database_cross_reference: FlyBase:FBrf0050373
database_cross_reference: FlyBase:FBrf0053160
database_cross_reference: FlyBase:FBrf0054242
database_cross_reference: FlyBase:FBrf0090460
database_cross_reference: FlyBase:FBrf0098344
database_cross_reference: FlyBase:FBrf0105240
database_cross_reference: FlyBase:FBrf0205499
database_cross_reference: FlyBase:FBrf0214261

CNS glial cell
type: Class
equivalent class: Class
  intersection of: glial cell
  intersection of: Restriction
    on property: part of
    some values from: central nervous system
subclass of: glial cell
subclass of: Restriction
  on property: part of
  some values from: central nervous system
definition: Glial cell of the central nervous system.
database_cross_reference: VFB:FBbt_00001256
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001256
in subset: cur

Axiom
annotated source: CNS glial cell
annotated property: definition
annotated target: Glial cell of the central nervous system.
database_cross_reference: FlyBase:FBrf0206543

PNS glial cell
type: Class
equivalent class: Class
  intersection of: glial cell
  intersection of: Restriction
    on property: part of
    some values from: peripheral nervous system
subclass of: glial cell
subclass of: Restriction
  on property: part of
  some values from: peripheral nervous system
definition: Glial cell that is part of the peripheral nervous system.
database_cross_reference: VFB:FBbt_00001320
has exact synonym: peripheral glial cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001320
in subset: cur

Axiom
annotated source: PNS glial cell
annotated property: definition
annotated target: Glial cell that is part of the peripheral nervous system.
database_cross_reference: FBC:SPR

embryonic neuroblast
type: Class
equivalent class: Class
  intersection of: neuroblast
  intersection of: Restriction
    on property: overlaps
    some values from: embryo
subclass of: developing embryonic structure
subclass of: neuroblast
subclass of: Restriction
  on property: part of
  some values from: presumptive embryonic/larval nervous system
definition: Any neuroblast of the embryo.
database_cross_reference: VFB:FBbt_00001332
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001332
in subset: cur

Axiom
annotated source: embryonic neuroblast
annotated property: definition
annotated target: Any neuroblast of the embryo.
database_cross_reference: FlyBase:FBrf0055900

neuroblast of ventral nervous system
type: Class
subclass of: ventral ectoderm derivative
subclass of: segmentally-repeated neuroblast
subclass of: Restriction
  on property: develops from
  some values from: ventral neurectoderm
definition: Neuroblast that generates cells of the ventral nervous system, including interneurons, motor neurons and/or glial cells (Bossing et al., 1996). These neuroblasts derive from the ventral neurectoderm (Bossing et al., 1996).
database_cross_reference: VFB:FBbt_00001369
has exact synonym: VNC neuroblast
has OBO namespace: fly_anatomy.ontology
has related synonym: neuroblast of ventral nerve cord primordium
id: FBbt:00001369
in subset: EmbDevSlim
in subset: cur
comment: Applies to neuroblasts at all stages of development.

Axiom
annotated source: neuroblast of ventral nervous system
annotated property: definition
annotated target: Neuroblast that generates cells of the ventral nervous system, including interneurons, motor neurons and/or glial cells (Bossing et al., 1996). These neuroblasts derive from the ventral neurectoderm (Bossing et al., 1996).
database_cross_reference: FlyBase:FBrf0090460
database_cross_reference: FlyBase:FBrf0098344

larval neuron
type: Class
equivalent class: Class
  intersection of: neuron
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: neuron
subclass of: Restriction
  on property: part of
  some values from: larval nervous system
definition: Neuron that is part of the larval nervous system. Neurons with functional roles in the larva are born during the embryonic phase of neurogenesis and further neurons, with adult-specific roles, are born during the postembryonic phase, which begins during larval development (Lacin and Truman, 2016).
database_cross_reference: VFB:FBbt_00001446
has exact synonym: embryonic/larval neuron
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001446
in subset: cur
comment: This includes immature secondary neurons that are found in the larva - https://orcid.org/0000-0002-1373-1705.

Axiom
annotated source: larval neuron
annotated property: definition
annotated target: Neuron that is part of the larval nervous system. Neurons with functional roles in the larva are born during the embryonic phase of neurogenesis and further neurons, with adult-specific roles, are born during the postembryonic phase, which begins during larval development (Lacin and Truman, 2016).
database_cross_reference: FlyBase:FBrf0090460
database_cross_reference: FlyBase:FBrf0098344
database_cross_reference: FlyBase:FBrf0231327

embryonic imaginal tissue
type: Class
equivalent class: Class
  intersection of: imaginal tissue
  intersection of: Restriction
    on property: overlaps
    some values from: embryo
subclass of: developing embryonic structure
subclass of: imaginal tissue
definition: Embryonic structure that will develop into a larval imaginal tissue, which will later form an adult structure (Cohen, 1993).
database_cross_reference: UBERON:6001648
has exact synonym: embryonic imaginal precursor
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001648
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic imaginal tissue
annotated property: definition
annotated target: Embryonic structure that will develop into a larval imaginal tissue, which will later form an adult structure (Cohen, 1993).
database_cross_reference: FlyBase:FBrf0064789

imaginal disc primordium
type: Class
subclass of: embryonic imaginal tissue
subclass of: primordium
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: dorsal closure embryo
subclass of: Restriction
  on property: develops from
  some values from: ventral epidermis primordium
subclass of: Restriction
  on property: develops into
  some values from: imaginal disc
definition: Population of contiguous, morphologically distinct cells of the embryo that will proliferate to form an imaginal disc in the larva. During early embryogenesis the precursor is part of the epithelial sheet before segregating from the epithelial sheet by late embryogenesis (Cohen, 1993).
database_cross_reference: UBERON:6001649
has OBO namespace: fly_anatomy.ontology
has related synonym: imaginal disc specific anlage
id: FBbt:00001649
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: imaginal disc primordium
annotated property: definition
annotated target: Population of contiguous, morphologically distinct cells of the embryo that will proliferate to form an imaginal disc in the larva. During early embryogenesis the precursor is part of the epithelial sheet before segregating from the epithelial sheet by late embryogenesis (Cohen, 1993).
database_cross_reference: FBC:SPR
database_cross_reference: FlyBase:FBrf0064789

larval circulatory system
type: Class
equivalent class: Class
  intersection of: circulatory system
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: circulatory system
subclass of: Restriction
  on property: part of
  some values from: larva
definition: Tubular system of the late embryo and larva through which hemolymph flows.
has alternative id: FBbt:00005677
database_cross_reference: UBERON:6001664
has exact synonym: embryonic/larval circulatory system
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001664
in subset: cur

Axiom
annotated source: larval circulatory system
annotated property: definition
annotated target: Tubular system of the late embryo and larva through which hemolymph flows.
database_cross_reference: FlyBase:FBrf0031012

embryonic/larval hemocyte
type: Class
equivalent class: Class
  intersection of: hemocyte
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: hemocyte
subclass of: Restriction
  on property: part of
  some values from: larval circulatory system
definition: Blood cell of the embryo or larva that is involved in the cellular immune response.
has alternative id: FBbt:00005701
has exact synonym: embryonic/larval blood cell
has exact synonym: embryonic/larval haemocyte
has exact synonym: larval hemocyte
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001684
in subset: cur

Axiom
annotated source: embryonic/larval hemocyte
annotated property: definition
annotated target: Blood cell of the embryo or larva that is involved in the cellular immune response.
database_cross_reference: FlyBase:FBrf0037631

embryonic/larval plasmatocyte
type: Class
equivalent class: Class
  intersection of: plasmatocyte
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: embryonic/larval hemocyte
subclass of: mesodermal derivative
subclass of: plasmatocyte
subclass of: Restriction
  on property: develops from
  some values from: proplasmatocyte
definition: Hemocyte of the embryo and larva. Relatively large, irregularly shaped hemocyte (Brehelin, 1982). At the end of the third instar larval stage, plasmatocytes contains numerous inclusions, digitations and pinocytotic vesicles, well developed rough endoplasmic reticulum, Golgi apparatus and small lysosome-like bodies. By the end of the third instar period they also contain numerous phagosomes. Plasmatocytes represent 90-95% of all mature larval hemocytes. They function in the removal of dead cells and microbial pathogens.
database_cross_reference: CL:0000394
has exact synonym: Pl
has exact synonym: macrophage
has exact synonym: podocyte
has OBO namespace: fly_anatomy.ontology
has related synonym: agranular plasmatocyte
has related synonym: granulocyte
has related synonym: lamellocyte
has related synonym: typical plasmatocyte
id: FBbt:00001685
in subset: cur
comment: Brehelin and Zachary (1986) state that they never observe granular inclusions in plasmatocytes. Sometimes a few primary lysosomes as well as rare multivesicular bodies are visible, but these lysosomes are never 'condensed' into electron-dense granules. Together, this suggests that the synonym of 'granulocytes' is erroneous. The term podocyte refers to a plasmatocyte that extends long cytoplasmic extensions. They are no longer recognized as a distinct cell type (Michelle Crozatier, personal communication).

Axiom
annotated source: embryonic/larval plasmatocyte
annotated property: definition
annotated target: Hemocyte of the embryo and larva. Relatively large, irregularly shaped hemocyte (Brehelin, 1982). At the end of the third instar larval stage, plasmatocytes contains numerous inclusions, digitations and pinocytotic vesicles, well developed rough endoplasmic reticulum, Golgi apparatus and small lysosome-like bodies. By the end of the third instar period they also contain numerous phagosomes. Plasmatocytes represent 90-95% of all mature larval hemocytes. They function in the removal of dead cells and microbial pathogens.
database_cross_reference: FlyBase:FBrf0037631
database_cross_reference: FlyBase:FBrf0066479
database_cross_reference: FlyBase:FBrf0134542

Axiom
annotated source: embryonic/larval plasmatocyte
annotated property: hasExactSynonym
annotated target: Pl
database_cross_reference: FlyBase:FBrf0066479

Axiom
annotated source: embryonic/larval plasmatocyte
annotated property: hasExactSynonym
annotated target: macrophage
database_cross_reference: FlyBase:FBrf0234752

Axiom
annotated source: embryonic/larval plasmatocyte
annotated property: hasExactSynonym
annotated target: podocyte
database_cross_reference: https://orcid.org/0000-0001-5948-3092

Axiom
annotated source: embryonic/larval plasmatocyte
annotated property: hasRelatedSynonym
annotated target: agranular plasmatocyte
database_cross_reference: FlyBase:FBrf0037631
database_cross_reference: FlyBase:FBrf0066479

Axiom
annotated source: embryonic/larval plasmatocyte
annotated property: hasRelatedSynonym
annotated target: granulocyte
database_cross_reference: FlyBase:FBrf0037631
database_cross_reference: FlyBase:FBrf0066479

Axiom
annotated source: embryonic/larval plasmatocyte
annotated property: hasRelatedSynonym
annotated target: lamellocyte
database_cross_reference: FlyBase:FBrf0037631
database_cross_reference: FlyBase:FBrf0066479

Axiom
annotated source: embryonic/larval plasmatocyte
annotated property: hasRelatedSynonym
annotated target: typical plasmatocyte
database_cross_reference: FlyBase:FBrf0037631
database_cross_reference: FlyBase:FBrf0066479

procrystal cell
type: Class
subclass of: prohemocyte
subclass of: Restriction
  on property: expresses
  some values from: FBgn0002576
definition: An immature crystal cell. These cells measure 8 to 9 micrometers in diameter and can be distinguished from prohemocytes by the lack of cytoplasmic processes and fewer ribosomes, rough endoplasmic reticulum, mitochondria and Golgi bodies (Shrestha and Gateff, 1982). They express lozenge, an early crystal cell marker (Honti et al., 2014).
database_cross_reference: CL:0000395
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001689
in subset: cur

Axiom
annotated source: procrystal cell
annotated property: definition
annotated target: An immature crystal cell. These cells measure 8 to 9 micrometers in diameter and can be distinguished from prohemocytes by the lack of cytoplasmic processes and fewer ribosomes, rough endoplasmic reticulum, mitochondria and Golgi bodies (Shrestha and Gateff, 1982). They express lozenge, an early crystal cell marker (Honti et al., 2014).
database_cross_reference: FlyBase:FBrf0074444
database_cross_reference: FlyBase:FBrf0134542
database_cross_reference: FlyBase:FBrf0223115
database_cross_reference: FlyBase:FBrf0228946

embryonic/larval crystal cell
type: Class
equivalent class: Class
  intersection of: crystal cell
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: embryonic/larval hemocyte
subclass of: mesodermal derivative
subclass of: crystal cell
subclass of: Restriction
  on property: develops from
  some values from: procrystal cell
definition: Hemocyte of the embryo and larva. A cell that is slightly larger than the plasmatocytes and is distinguished by containing large crystalline inclusions of prophenol oxidase that are not membrane bound (Brehelin, 1982). Crystal cells represent less than 5% of all mature larval hemocytes. They are non-phagocytic cells that facilitate innate immune and wound-healing responses by mediating the process of melanization.
database_cross_reference: CL:0000715
has exact synonym: Oe
has exact synonym: oenocytoid
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001690
in subset: cur

Axiom
annotated source: embryonic/larval crystal cell
annotated property: definition
annotated target: Hemocyte of the embryo and larva. A cell that is slightly larger than the plasmatocytes and is distinguished by containing large crystalline inclusions of prophenol oxidase that are not membrane bound (Brehelin, 1982). Crystal cells represent less than 5% of all mature larval hemocytes. They are non-phagocytic cells that facilitate innate immune and wound-healing responses by mediating the process of melanization.
database_cross_reference: FlyBase:FBrf0031012
database_cross_reference: FlyBase:FBrf0035582
database_cross_reference: FlyBase:FBrf0037631
database_cross_reference: FlyBase:FBrf0074444
database_cross_reference: FlyBase:FBrf0085863
database_cross_reference: FlyBase:FBrf0134542
database_cross_reference: FlyBase:FBrf0228946

Axiom
annotated source: embryonic/larval crystal cell
annotated property: hasExactSynonym
annotated target: Oe
database_cross_reference: FlyBase:FBrf0066479

Axiom
annotated source: embryonic/larval crystal cell
annotated property: hasExactSynonym
annotated target: oenocytoid
database_cross_reference: FlyBase:FBrf0066479

larva
type: Class
subclass of: organism
subclass of: Restriction
  on property: develops from
  some values from: embryo
definition: Organism during the period between hatching and prepupa formation.
database_cross_reference: UBERON:0002548
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001727
in subset: FB gloss
in subset: cur
in subset: larval OF

Axiom
annotated source: larva
annotated property: definition
annotated target: Organism during the period between hatching and prepupa formation.
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0089570

larval tagma
type: Class
equivalent class: Class
  intersection of: tagma
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: tagma
subclass of: Restriction
  on property: part of
  some values from: larva
definition: Any tagma of the larva.
database_cross_reference: UBERON:6001728
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001728
in subset: cur

Axiom
annotated source: larval tagma
annotated property: definition
annotated target: Any tagma of the larva.
database_cross_reference: FBC:Autogenerated

larval segment
type: Class
equivalent class: Class
  intersection of: segment
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: segment
subclass of: Restriction
  on property: part of
  some values from: larva
subclass of: Restriction
  on property: develops from
  some values from: embryonic segment
definition: Any segment of the larva.
database_cross_reference: UBERON:6001729
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001729
in subset: cur
in subset: larval OF

Axiom
annotated source: larval segment
annotated property: definition
annotated target: Any segment of the larva.
database_cross_reference: FBC:Autogenerated

larval abdomen
type: Class
equivalent class: Class
  intersection of: abdomen
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: abdomen
subclass of: larval tagma
definition: Any abdomen of the larva.
database_cross_reference: UBERON:6001746
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001746
in subset: cur

Axiom
annotated source: larval abdomen
annotated property: definition
annotated target: Any abdomen of the larva.
database_cross_reference: FBC:Autogenerated

larval abdominal segment
type: Class
equivalent class: Class
  intersection of: abdominal segment
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: abdominal segment
subclass of: larval segment
subclass of: Restriction
  on property: part of
  some values from: larval abdomen
definition: Any abdominal segment of the larva.
database_cross_reference: UBERON:6001747
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001747
in subset: cur

Axiom
annotated source: larval abdominal segment
annotated property: definition
annotated target: Any abdominal segment of the larva.
database_cross_reference: FBC:Autogenerated

larval abdominal segment 11
type: Class
equivalent class: Class
  intersection of: abdominal segment 11
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: abdominal segment 11
subclass of: larval terminal segment
subclass of: Restriction
  on property: part of
  some values from: larval telson
definition: Rudimentary larval abdominal segment that surrounds the anal opening.
has OBO namespace: fly_anatomy.ontology
has related synonym: a11
id: FBbt:00001758
in subset: cur

Axiom
annotated source: larval abdominal segment 11
annotated property: definition
annotated target: Rudimentary larval abdominal segment that surrounds the anal opening.
database_cross_reference: FlyBase:FBrf0064788

larval telson
type: Class
equivalent class: Class
  intersection of: telson
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: telson
subclass of: Restriction
  on property: part of
  some values from: larval abdomen
definition: Any telson of the larva.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001759
in subset: cur

Axiom
annotated source: larval telson
annotated property: definition
annotated target: Any telson of the larva.
database_cross_reference: FBC:Autogenerated

larval imaginal tissue
type: Class
equivalent class: Class
  intersection of: imaginal tissue
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: imaginal tissue
subclass of: Restriction
  on property: part of
  some values from: larva
subclass of: Restriction
  on property: develops from
  some values from: embryonic imaginal tissue
definition: Imaginal tissue that is found in the larva and will develop into an adult structure during metamorphosis.
database_cross_reference: UBERON:6001760
has exact synonym: embryonic/larval imaginal precursor
has exact synonym: larval imaginal precursor
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001760
in subset: cur

Axiom
annotated source: larval imaginal tissue
annotated property: definition
annotated target: Imaginal tissue that is found in the larva and will develop into an adult structure during metamorphosis.
database_cross_reference: FlyBase:FBrf0064789

imaginal disc
type: Class
subclass of: larval imaginal tissue
subclass of: multi-tissue structure
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: develops from
  some values from: imaginal disc primordium
definition: A sac shaped epithelial structure in the larva that gives rise to part of the adult integumentary system. One side of the sac consists of peripodial epithelium, the other of columnar epithelium. A single anterior-posterior compartment boundary bisects both peripodial membrane and columnar epithelium. Cells do not cross this boundary during growth and development of the disc.
database_cross_reference: UBERON:0000939
has OBO namespace: fly_anatomy.ontology
has related synonym: imaginal disk
id: FBbt:00001761
in subset: FB gloss
in subset: cur

Axiom
annotated source: imaginal disc
annotated property: definition
annotated target: A sac shaped epithelial structure in the larva that gives rise to part of the adult integumentary system. One side of the sac consists of peripodial epithelium, the other of columnar epithelium. A single anterior-posterior compartment boundary bisects both peripodial membrane and columnar epithelium. Cells do not cross this boundary during growth and development of the disc.
database_cross_reference: FBC:GG

imaginal ring
type: Class
subclass of: larval imaginal tissue
definition: A ring shaped structure in the larva that gives rise to part of the adult.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001834
in subset: cur

Axiom
annotated source: imaginal ring
annotated property: definition
annotated target: A ring shaped structure in the larva that gives rise to part of the adult.
database_cross_reference: FlyBase:FBrf0064792

larval hindgut imaginal ring
type: Class
subclass of: imaginal ring
subclass of: posterior ectoderm derivative
subclass of: gut section
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval hindgut
subclass of: Restriction
  on property: develops from
  some values from: embryonic precursor of adult hindgut
definition: Ring of imaginal tissue located at the anterior region of the embryonic/larval hindgut, posterior to where the Malpighian tubules join the hindgut, from which the adult hindgut forms. The hindgut imaginal ring cells are densely clustered, appear immature and have little cytoplasm (Murakami and Shiotsuki, 2001).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001840
in subset: cur

Axiom
annotated source: larval hindgut imaginal ring
annotated property: definition
annotated target: Ring of imaginal tissue located at the anterior region of the embryonic/larval hindgut, posterior to where the Malpighian tubules join the hindgut, from which the adult hindgut forms. The hindgut imaginal ring cells are densely clustered, appear immature and have little cytoplasm (Murakami and Shiotsuki, 2001).
database_cross_reference: FlyBase:FBrf0064792
database_cross_reference: FlyBase:FBrf0135849

anal imaginal ring
type: Class
subclass of: imaginal ring
subclass of: posterior ectoderm derivative
subclass of: gut section
subclass of: Restriction
  on property: part of
  some values from: larval abdominal segment 11
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval anus
subclass of: Restriction
  on property: develops from
  some values from: embryonic precursor of adult hindgut
definition: Imaginal tissue of the larva from which the adult anus develops.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001841
in subset: cur

Axiom
annotated source: anal imaginal ring
annotated property: definition
annotated target: Imaginal tissue of the larva from which the adult anus develops.
database_cross_reference: FlyBase:FBrf0064792

larval digestive system
type: Class
equivalent class: Class
  intersection of: digestive system
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: digestive system
subclass of: Restriction
  on property: part of
  some values from: larva
definition: Any digestive system of the larva.
has alternative id: FBbt:00005764
database_cross_reference: UBERON:6001842
has exact synonym: embryonic/larval digestive system
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001842
in subset: cur

Axiom
annotated source: larval digestive system
annotated property: definition
annotated target: Any digestive system of the larva.
database_cross_reference: FlyBase:FBrf0007733
database_cross_reference: FlyBase:FBrf0064792

embryonic/larval foregut
type: Class
subclass of: foregut
subclass of: anterior ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval gut
subclass of: Restriction
  on property: develops from
  some values from: embryonic foregut
definition: Anterior-most part of the embryonic/larval alimentary canal. It opens anteriorly at the mouth and is composed of the atrium (to which the salivary glands are attached), the pharynx, and the esophagus and part of the proventriculus.
has alternative id: FBbt:00005768
has exact synonym: foreintestine
has exact synonym: larval foregut
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001862
in subset: cur

Axiom
annotated source: embryonic/larval foregut
annotated property: definition
annotated target: Anterior-most part of the embryonic/larval alimentary canal. It opens anteriorly at the mouth and is composed of the atrium (to which the salivary glands are attached), the pharynx, and the esophagus and part of the proventriculus.
database_cross_reference: FlyBase:FBrf0064792

Axiom
annotated source: embryonic/larval foregut
annotated property: hasExactSynonym
annotated target: foreintestine
database_cross_reference: FlyBase:FBrf0007733

embryonic/larval proventriculus
type: Class
subclass of: proventriculus
subclass of: Restriction
  on property: part of
  some values from: larval caeca region
subclass of: Restriction
  on property: overlaps
  some values from: embryonic/larval foregut
subclass of: Restriction
  on property: overlaps
  some values from: embryonic/larval midgut
subclass of: Restriction
  on property: develops from
  some values from: embryonic proventriculus
definition: Proventriculus (cardia) of the embryo or larva.
has alternative id: FBbt:00005772
has exact synonym: embryonic/larval cardia
has exact synonym: larval proventriculus
has OBO namespace: fly_anatomy.ontology
has related synonym: embryonic/larval cardiac valve
has related synonym: embryonic/larval gastric valve
id: FBbt:00001871
in subset: cur
comment: This structure is more correctly referred to as the 'cardia'. Strictly, proventriculus refers to a modification of the foregut, just anterior to the stomodeal valve, found in many insects. Drosophila has no such foregut modification (Miller, 1950). However, the term 'proventriculus' is the one most commonly used for this structure.

Axiom
annotated source: embryonic/larval proventriculus
annotated property: definition
annotated target: Proventriculus (cardia) of the embryo or larva.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

Axiom
annotated source: embryonic/larval proventriculus
annotated property: hasExactSynonym
annotated target: embryonic/larval cardia
database_cross_reference: FlyBase:FBrf0007735

Axiom
annotated source: embryonic/larval proventriculus
annotated property: hasRelatedSynonym
annotated target: embryonic/larval cardiac valve
database_cross_reference: FlyBase:FBrf0064792

Axiom
annotated source: embryonic/larval proventriculus
annotated property: hasRelatedSynonym
annotated target: embryonic/larval gastric valve
database_cross_reference: FlyBase:FBrf0064792

embryonic/larval salivary gland
type: Class
subclass of: salivary gland
subclass of: Restriction
  on property: part of
  some values from: larval digestive system
subclass of: Restriction
  on property: develops from
  some values from: presumptive embryonic salivary gland
definition: Salivary gland of the embryo/larva.
has alternative id: FBbt:00005717
has exact synonym: larval salivary gland
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001878
in subset: cur

Axiom
annotated source: embryonic/larval salivary gland
annotated property: definition
annotated target: Salivary gland of the embryo/larva.
database_cross_reference: FBC:SPR

embryonic/larval midgut
type: Class
subclass of: midgut
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval gut
subclass of: Restriction
  on property: develops from
  some values from: fused midgut primordium
definition: Middle part of the embryonic/larval alimentary canal. The midgut runs from the proventriculus to its posterior end, where it meets the hindgut, immediately anterior to the insertion of the Malpighian tubules. In the larva, there are the 4 gastric caeca at the anterior end.
has alternative id: FBbt:00005825
has exact synonym: larval midgut
has exact synonym: midintestine
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001882
in subset: cur

Axiom
annotated source: embryonic/larval midgut
annotated property: definition
annotated target: Middle part of the embryonic/larval alimentary canal. The midgut runs from the proventriculus to its posterior end, where it meets the hindgut, immediately anterior to the insertion of the Malpighian tubules. In the larva, there are the 4 gastric caeca at the anterior end.
database_cross_reference: FlyBase:FBrf0064792

Axiom
annotated source: embryonic/larval midgut
annotated property: hasExactSynonym
annotated target: midintestine
database_cross_reference: FlyBase:FBrf0007733

embryonic/larval midgut cell
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: embryonic/larval midgut
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval midgut
definition: Cell of the embryonic or larval midgut.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001886
in subset: cur

Axiom
annotated source: embryonic/larval midgut cell
annotated property: definition
annotated target: Cell of the embryonic or larval midgut.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

embryonic/larval hindgut
type: Class
subclass of: hindgut
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval gut
definition: Posterior part of the embryonic/larval alimentary canal, composed of pylorus (anterior), ileum and rectum (posterior) (Cohen et al., 2020).
has alternative id: FBbt:00005826
has exact synonym: hindintestine
has exact synonym: larval hindgut
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001891
in subset: cur

Axiom
annotated source: embryonic/larval hindgut
annotated property: definition
annotated target: Posterior part of the embryonic/larval alimentary canal, composed of pylorus (anterior), ileum and rectum (posterior) (Cohen et al., 2020).
database_cross_reference: FlyBase:FBrf0064792
database_cross_reference: FlyBase:FBrf0244771

Axiom
annotated source: embryonic/larval hindgut
annotated property: hasExactSynonym
annotated target: hindintestine
database_cross_reference: FlyBase:FBrf0007733

embryonic/larval rectum
type: Class
subclass of: rectum
subclass of: posterior ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval hindgut
subclass of: Restriction
  on property: develops from
  some values from: rectum primordium
definition: Posterior-most portion of the embryonic/larval alimentary canal, terminating in the anus.
has alternative id: FBbt:00005779
has exact synonym: larval rectum
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001892
in subset: cur

Axiom
annotated source: embryonic/larval rectum
annotated property: definition
annotated target: Posterior-most portion of the embryonic/larval alimentary canal, terminating in the anus.
database_cross_reference: FlyBase:FBrf0064792
database_cross_reference: FlyBase:FBrf0186027

embryonic/larval anus
type: Class
subclass of: anus
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval rectum
definition: Posterior opening of the embryonic/larval hindgut.
has exact synonym: larval anus
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001893
in subset: cur

Axiom
annotated source: embryonic/larval anus
annotated property: definition
annotated target: Posterior opening of the embryonic/larval hindgut.
database_cross_reference: FBC:SPR

embryonic/larval Malpighian tubule
type: Class
subclass of: Malpighian tubule
subclass of: Restriction
  on property: part of
  some values from: larval excretory system
subclass of: Restriction
  on property: continuous with
  some values from: embryonic/larval hindgut
subclass of: Restriction
  on property: develops from
  some values from: embryonic Malpighian tubule
definition: Malpighian tubule of the embryo/larva. The larval tubule is very similar to that of the adult, except that the initial segment of the anterior tubule is bigger in the larva.
has exact synonym: larval Malpighian tubule
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001896
in subset: cur

Axiom
annotated source: embryonic/larval Malpighian tubule
annotated property: definition
annotated target: Malpighian tubule of the embryo/larva. The larval tubule is very similar to that of the adult, except that the initial segment of the anterior tubule is bigger in the larva.
database_cross_reference: FlyBase:FBrf0222532

embryonic/larval specialized Malpighian tubule cell
type: Class
equivalent class: Class
  intersection of: specialized Malpighian tubule cell
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: specialized Malpighian tubule cell
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval Malpighian tubule
definition: Specialized cell of the embryonic/larval Malpighian tubules.
has exact synonym: embryonic/larval specialised Malpighian tubule cell
has exact synonym: larval specialized Malpighian tubule cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001904
in subset: cur

Axiom
annotated source: embryonic/larval specialized Malpighian tubule cell
annotated property: definition
annotated target: Specialized cell of the embryonic/larval Malpighian tubules.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

larval Malpighian tubule tip cell
type: Class
equivalent class: Class
  intersection of: Malpighian tubule tip cell
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: embryonic/larval specialized Malpighian tubule cell
subclass of: Malpighian tubule tip cell
definition: Tip cell of the embryonic/larval Malpighian tubule.
has exact synonym: embryonic/larval Malpighian tubule tip cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001905
in subset: cur

Axiom
annotated source: larval Malpighian tubule tip cell
annotated property: definition
annotated target: Tip cell of the embryonic/larval Malpighian tubule.
database_cross_reference: FlyBase:FBrf0223292

larval nervous system
type: Class
equivalent class: Class
  intersection of: nervous system
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: nervous system
subclass of: Restriction
  on property: part of
  some values from: larva
definition: Nervous system of the embryo/larva.
has alternative id: FBbt:00005719
database_cross_reference: UBERON:6001911
database_cross_reference: VFB:FBbt_00001911
has exact synonym: embryonic/larval nervous system
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001911
in subset: cur

Axiom
annotated source: larval nervous system
annotated property: definition
annotated target: Nervous system of the embryo/larva.
database_cross_reference: FlyBase:FBrf0045359
database_cross_reference: FlyBase:FBrf0075072
database_cross_reference: FlyBase:FBrf0105282

larval central nervous system
type: Class
equivalent class: Class
  intersection of: central nervous system
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: central nervous system
subclass of: Restriction
  on property: part of
  some values from: larval nervous system
definition: Central nervous system of the embryo/larva.
database_cross_reference: UBERON:6001919
database_cross_reference: VFB:FBbt_00001919
has exact synonym: embryonic/larval CNS
has exact synonym: embryonic/larval central nervous system
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001919
in subset: cur
in subset: larval OF

Axiom
annotated source: larval central nervous system
annotated property: definition
annotated target: Central nervous system of the embryo/larva.
database_cross_reference: FBC:SPR

abdominal neuron
type: Class
equivalent class: Class
  intersection of: neuron
  intersection of: Restriction
    on property: has soma location
    some values from: abdomen
subclass of: neuron
subclass of: Restriction
  on property: has soma location
  some values from: abdomen
definition: Any neuron (FBbt:00005106) that has its soma located in some abdomen (FBbt:00000020).
database_cross_reference: VFB:FBbt_00001987
has OBO namespace: fly_anatomy.ontology
id: FBbt:00001987
in subset: cur

Axiom
annotated source: abdominal neuron
annotated property: definition
annotated target: Any neuron (FBbt:00005106) that has its soma located in some abdomen (FBbt:00000020).
database_cross_reference: FBC:Autogenerated

prepupa
type: Class
subclass of: organism
subclass of: Restriction
  on property: develops from
  some values from: larva
definition: The prepupa is the name given to the organism at the period of the life cycle that begins at puparium formation and ends when larval/pupal apolysis is complete, as indicated by the completion of imaginal head sac eversion and the expulsion of the oral armature of the larva. Duration at 25 degrees C is approximately 12 hours. It occurs 120-132.2 hours after egg laying, and is the period of 0-12.2 hours after puparium formation.
database_cross_reference: UBERON:0003142
has OBO namespace: fly_anatomy.ontology
has related synonym: PP
id: FBbt:00002952
in subset: FB gloss
in subset: cur

Axiom
annotated source: prepupa
annotated property: definition
annotated target: The prepupa is the name given to the organism at the period of the life cycle that begins at puparium formation and ends when larval/pupal apolysis is complete, as indicated by the completion of imaginal head sac eversion and the expulsion of the oral armature of the larva. Duration at 25 degrees C is approximately 12 hours. It occurs 120-132.2 hours after egg laying, and is the period of 0-12.2 hours after puparium formation.
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

pupa
type: Class
subclass of: organism
subclass of: Restriction
  on property: develops from
  some values from: prepupa
definition: The pupa is the name given to the organism at the period of the life cycle that begins once larval/pupal apolysis is complete, as indicated by the expulsion of the larval armature. Early in this stage the legs and wings reach full extension along the abdomen. The stage ends when the pupal cuticle separates from the underlying epidermis (pupal/adult apolysis), and the eye cup becomes yellow at its periphery. The duration of this stage is approximately 32 hours at 25 degrees C, and spans from 132.2-164.3 hours after egg laying, or is the period of 12.2-44.3 hours after puparium formation.
database_cross_reference: UBERON:0003143
has OBO namespace: fly_anatomy.ontology
has related synonym: P
id: FBbt:00002953
in subset: FB gloss
in subset: cur

Axiom
annotated source: pupa
annotated property: definition
annotated target: The pupa is the name given to the organism at the period of the life cycle that begins once larval/pupal apolysis is complete, as indicated by the expulsion of the larval armature. Early in this stage the legs and wings reach full extension along the abdomen. The stage ends when the pupal cuticle separates from the underlying epidermis (pupal/adult apolysis), and the eye cup becomes yellow at its periphery. The duration of this stage is approximately 32 hours at 25 degrees C, and spans from 132.2-164.3 hours after egg laying, or is the period of 12.2-44.3 hours after puparium formation.
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

adult
type: Class
subclass of: organism
subclass of: Restriction
  on property: develops from
  some values from: pharate adult
definition: Organism at any stage after completing eclosion.
database_cross_reference: UBERON:0007023
has OBO namespace: fly_anatomy.ontology
has related synonym: imago
id: FBbt:00003004
in subset: FB gloss
in subset: cur

Axiom
annotated source: adult
annotated property: definition
annotated target: Organism at any stage after completing eclosion.
database_cross_reference: FlyBase:FBrf0036849

adult tagma
type: Class
equivalent class: Class
  intersection of: tagma
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: tagma
subclass of: Restriction
  on property: part of
  some values from: adult
definition: Any tagma of the adult.
database_cross_reference: UBERON:6003005
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003005
in subset: cur

Axiom
annotated source: adult tagma
annotated property: definition
annotated target: Any tagma of the adult.
database_cross_reference: FBC:Autogenerated

adult segment
type: Class
equivalent class: Class
  intersection of: segment
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: segment
subclass of: Restriction
  on property: part of
  some values from: adult
definition: Segment of the adult.
database_cross_reference: UBERON:6003006
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003006
in subset: cur

Axiom
annotated source: adult segment
annotated property: definition
annotated target: Segment of the adult.
database_cross_reference: FBC:SPR

adult abdomen
type: Class
equivalent class: Class
  intersection of: abdomen
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: abdomen
subclass of: adult tagma
subclass of: Restriction
  on property: part of
  some values from: adult postcephalic region
definition: Abdomen of the adult.
database_cross_reference: UBERON:6003023
database_cross_reference: https://www.ento.csiro.au/biology/drosophila/melanogaster.html
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003023
in subset: cur

Axiom
annotated source: adult abdomen
annotated property: definition
annotated target: Abdomen of the adult.
database_cross_reference: FlyBase:FBim0000809
database_cross_reference: FlyBase:FBim0000810

adult abdominal segment
type: Class
equivalent class: Class
  intersection of: abdominal segment
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: abdominal segment
subclass of: adult segment
subclass of: Restriction
  on property: part of
  some values from: adult abdomen
definition: Any abdominal segment of the adult.
database_cross_reference: UBERON:6003024
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003024
in subset: cur

Axiom
annotated source: adult abdominal segment
annotated property: definition
annotated target: Any abdominal segment of the adult.
database_cross_reference: FBC:Autogenerated

adult abdominal segment 11
type: Class
equivalent class: Class
  intersection of: abdominal segment 11
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: abdominal segment 11
subclass of: adult terminal segment
subclass of: Restriction
  on property: part of
  some values from: adult telson
definition: Any abdominal segment 11 of the adult.
has OBO namespace: fly_anatomy.ontology
has related synonym: a11
id: FBbt:00003035
in subset: cur

Axiom
annotated source: adult abdominal segment 11
annotated property: definition
annotated target: Any abdominal segment 11 of the adult.
database_cross_reference: FBC:Autogenerated

adult telson
type: Class
equivalent class: Class
  intersection of: telson
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: telson
subclass of: Restriction
  on property: part of
  some values from: adult abdomen
definition: Any telson of the adult.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003036
in subset: cur

Axiom
annotated source: adult telson
annotated property: definition
annotated target: Any telson of the adult.
database_cross_reference: FBC:Autogenerated

adult tracheal system
type: Class
equivalent class: Class
  intersection of: tracheal system
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: tracheal system
subclass of: Restriction
  on property: part of
  some values from: adult
definition: Tracheal system of the adult. It retains the same basic pattern of the larval tracheal system, except for the presence of air sacs and the disappearance of the last tracheal segment. It is composed of nine tracheal metameres.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003037
in subset: cur

Axiom
annotated source: adult tracheal system
annotated property: definition
annotated target: Tracheal system of the adult. It retains the same basic pattern of the larval tracheal system, except for the presence of air sacs and the disappearance of the last tracheal segment. It is composed of nine tracheal metameres.
database_cross_reference: FlyBase:FBim0000051
database_cross_reference: FlyBase:FBim0000052
database_cross_reference: FlyBase:FBim0000053
database_cross_reference: FlyBase:FBrf0034081
database_cross_reference: FlyBase:FBrf0064787

adult digestive system
type: Class
equivalent class: Class
  intersection of: digestive system
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: digestive system
subclass of: Restriction
  on property: part of
  some values from: adult
definition: Digestive system of the adult, comprising the alimentary canal, mouthparts, labellar glands, salivary glands and Malpighian tubules (Miller, 1950). The adult alimentary canal and salivary glands arise anew from precursors during metamorphosis (Bodenstein, 1950). The adult Malpighian tubules are remodelled from those of the larva (Bodenstein, 1950).
has OBO namespace: fly_anatomy.ontology
has related synonym: pupal/adult digestive system
id: FBbt:00003123
in subset: cur

Axiom
annotated source: adult digestive system
annotated property: definition
annotated target: Digestive system of the adult, comprising the alimentary canal, mouthparts, labellar glands, salivary glands and Malpighian tubules (Miller, 1950). The adult alimentary canal and salivary glands arise anew from precursors during metamorphosis (Bodenstein, 1950). The adult Malpighian tubules are remodelled from those of the larva (Bodenstein, 1950).
database_cross_reference: FlyBase:FBrf0007733
database_cross_reference: FlyBase:FBrf0007735

alimentary canal
type: Class
subclass of: multi-tissue structure
subclass of: Restriction
  on property: part of
  some values from: digestive system
definition: The entire anatomical structure through which food and its digestion products are ingested, digested and excreted. At its anterior and posterior ends this includes structures that are not foregut or hindgut.
database_cross_reference: UBERON:0001555
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003125
in subset: cur

Axiom
annotated source: alimentary canal
annotated property: definition
annotated target: The entire anatomical structure through which food and its digestion products are ingested, digested and excreted. At its anterior and posterior ends this includes structures that are not foregut or hindgut.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

adult hindgut
type: Class
subclass of: hindgut
subclass of: posterior ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: adult gut
subclass of: Restriction
  on property: develops from
  some values from: larval hindgut imaginal ring
definition: Posterior part of the of the adult alimentary canal, extending from the posterior end of the midgut, where the Malpighian tubules meet, to the rectum, including the rectal pouch and rectal papillae (Miller, 1950; Skaer, 1993; Demerec, 1994). It has a characteristic loop morphology that forms independently of the rotation of the genitalia (Gonzalez-Morales et al., 2015).
has broad synonym: adult intestine
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003143
in subset: cur

Axiom
annotated source: adult hindgut
annotated property: definition
annotated target: Posterior part of the of the adult alimentary canal, extending from the posterior end of the midgut, where the Malpighian tubules meet, to the rectum, including the rectal pouch and rectal papillae (Miller, 1950; Skaer, 1993; Demerec, 1994). It has a characteristic loop morphology that forms independently of the rotation of the genitalia (Gonzalez-Morales et al., 2015).
database_cross_reference: FlyBase:FBrf0007735
database_cross_reference: FlyBase:FBrf0064792
database_cross_reference: FlyBase:FBrf0075527
database_cross_reference: FlyBase:FBrf0228784

Axiom
annotated source: adult hindgut
annotated property: hasBroadSynonym
annotated target: adult intestine
database_cross_reference: FlyBase:FBrf0007735

adult circulatory system
type: Class
equivalent class: Class
  intersection of: circulatory system
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: circulatory system
subclass of: Restriction
  on property: part of
  some values from: adult
definition: Circulatory system of the adult.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003149
in subset: cur

Axiom
annotated source: adult circulatory system
annotated property: definition
annotated target: Circulatory system of the adult.
database_cross_reference: FlyBase:FBrf0007735
database_cross_reference: FlyBase:FBrf0031012

adult muscle system
type: Class
equivalent class: Class
  intersection of: muscle system
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: muscle system
subclass of: Restriction
  on property: part of
  some values from: adult
definition: Muscle system of the adult.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003218
in subset: cur

Axiom
annotated source: adult muscle system
annotated property: definition
annotated target: Muscle system of the adult.
database_cross_reference: FlyBase:FBrf0007735

adult somatic muscle cell
type: Class
equivalent class: Class
  intersection of: muscle cell
  intersection of: Restriction
    on property: part of
    some values from: adult somatic muscle
subclass of: somatic muscle cell
subclass of: adult muscle cell
subclass of: Restriction
  on property: part of
  some values from: adult somatic muscle
definition: Any muscle cell (FBbt:00005074) that is part of some adult somatic muscle (FBbt:00058784).
database_cross_reference: UBERON:6003259
has exact synonym: adult skeletal muscle cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003259
in subset: cur

Axiom
annotated source: adult somatic muscle cell
annotated property: definition
annotated target: Any muscle cell (FBbt:00005074) that is part of some adult somatic muscle (FBbt:00058784).
database_cross_reference: FBC:Autogenerated

adult somatic muscle cell of abdomen
type: Class
equivalent class: Class
  intersection of: muscle cell
  intersection of: Restriction
    on property: part of
    some values from: adult somatic muscle of abdomen
subclass of: adult somatic muscle cell
subclass of: Restriction
  on property: part of
  some values from: adult somatic muscle of abdomen
definition: Any muscle cell (FBbt:00005074) that is part of some adult somatic muscle of abdomen (FBbt:00058966).
has exact synonym: skeletal muscle cell of abdomen
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003447
in subset: cur

Axiom
annotated source: adult somatic muscle cell of abdomen
annotated property: definition
annotated target: Any muscle cell (FBbt:00005074) that is part of some adult somatic muscle of abdomen (FBbt:00058966).
database_cross_reference: FBC:Autogenerated

female abdominal somatic muscle cell
type: Class
equivalent class: Class
  intersection of: muscle cell
  intersection of: Restriction
    on property: part of
    some values from: female abdominal somatic muscle
subclass of: adult somatic muscle cell of abdomen
subclass of: female-specific anatomical entity
subclass of: Restriction
  on property: part of
  some values from: female abdominal somatic muscle
definition: Any muscle cell (FBbt:00005074) that is part of some female abdominal somatic muscle (FBbt:00059018).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003507
in subset: cur

Axiom
annotated source: female abdominal somatic muscle cell
annotated property: definition
annotated target: Any muscle cell (FBbt:00005074) that is part of some female abdominal somatic muscle (FBbt:00059018).
database_cross_reference: FBC:Autogenerated

adult apodeme
type: Class
equivalent class: Class
  intersection of: apodeme
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: apodeme
subclass of: Restriction
  on property: part of
  some values from: adult integumentary system
definition: Apodeme that is part of an adult.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003516
in subset: cur
in subset: hidden assertion

Axiom
annotated source: adult apodeme
annotated property: definition
annotated target: Apodeme that is part of an adult.
database_cross_reference: FBC:SPR

adult visceral muscle cell
type: Class
equivalent class: Class
  intersection of: visceral muscle cell
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: visceral muscle cell
subclass of: adult muscle cell
definition: Muscle cell of a visceral muscle of the adult.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003525
in subset: cur
in subset: hidden assertion

Axiom
annotated source: adult visceral muscle cell
annotated property: definition
annotated target: Muscle cell of a visceral muscle of the adult.
database_cross_reference: FlyBase:FBrf0041814
database_cross_reference: FlyBase:FBrf0064793

hindgut muscle cell
type: Class
equivalent class: Class
  intersection of: visceral muscle cell
  intersection of: Restriction
    on property: part of
    some values from: hindgut
subclass of: visceral muscle cell
subclass of: Restriction
  on property: part of
  some values from: hindgut
definition: Cell that are part of the muscle fibers of the hindgut, the posterior part of the alimentary canal. It contains longitudinal and circular muscle fibers.
has broad synonym: intestine muscle
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003537
in subset: cur

Axiom
annotated source: hindgut muscle cell
annotated property: definition
annotated target: Cell that are part of the muscle fibers of the hindgut, the posterior part of the alimentary canal. It contains longitudinal and circular muscle fibers.
database_cross_reference: FlyBase:FBrf0007735

Axiom
annotated source: hindgut muscle cell
annotated property: hasBroadSynonym
annotated target: intestine muscle
database_cross_reference: FlyBase:FBrf0007735

adult nervous system
type: Class
equivalent class: Class
  intersection of: nervous system
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: nervous system
subclass of: Restriction
  on property: part of
  some values from: adult
definition: Any nervous system of the adult.
database_cross_reference: UBERON:6003559
database_cross_reference: VFB:FBbt_00003559
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003559
in subset: cur

Axiom
annotated source: adult nervous system
annotated property: definition
annotated target: Any nervous system of the adult.
database_cross_reference: FlyBase:FBrf0002482
database_cross_reference: FlyBase:FBrf0007196
database_cross_reference: FlyBase:FBrf0007735
database_cross_reference: FlyBase:FBrf0034076

abdominal neuroblast
type: Class
equivalent class: Class
  intersection of: neuroblast
  intersection of: Restriction
    on property: part of
    some values from: abdominal segment
subclass of: neuroblast of ventral nervous system
subclass of: Restriction
  on property: part of
  some values from: abdominal segment
definition: Any neuroblast (FBbt:00005146) that is part of some abdominal segment (FBbt:00000021).
database_cross_reference: VFB:FBbt_00003584
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003584
in subset: cur

Axiom
annotated source: abdominal neuroblast
annotated property: definition
annotated target: Any neuroblast (FBbt:00005146) that is part of some abdominal segment (FBbt:00000021).
database_cross_reference: FlyBase:FBrf0090460

adult central nervous system
type: Class
equivalent class: Class
  intersection of: central nervous system
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: central nervous system
subclass of: Restriction
  on property: part of
  some values from: adult nervous system
definition: Central nervous system of the adult.
database_cross_reference: UBERON:6003623
database_cross_reference: VFB:FBbt_00003623
has exact synonym: adult CNS
has OBO namespace: fly_anatomy.ontology
id: FBbt:00003623
in subset: cur

Axiom
annotated source: adult central nervous system
annotated property: definition
annotated target: Central nervous system of the adult.
database_cross_reference: FBC:SPR

hindgut anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: Restriction
  on property: part of
  some values from: posterior endoderm anlage
subclass of: Restriction
  on property: develops from
  some values from: hindgut anlage in statu nascendi
subclass of: Restriction
  on property: develops into
  some values from: inclusive hindgut primordium
definition: A(n) anlage that develops into some inclusive hindgut primordium. It develops from some hindgut anlage in statu nascendi.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004202
in subset: cur

Axiom
annotated source: hindgut anlage
annotated property: definition
annotated target: A(n) anlage that develops into some inclusive hindgut primordium. It develops from some hindgut anlage in statu nascendi.
database_cross_reference: FBC:Autogenerated

ventral ectoderm anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: Restriction
  on property: part of
  some values from: ectoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: ventral ectoderm
definition: Anlage that develops into the ventral ectoderm. It is found in the lateroventral trunk region of the embryo at the cellular blastoderm stage, prior to gastrulation (Stathopoulos and Newcomb, 2020).
has exact synonym: presumptive neuroectoderm
has exact synonym: ventral/neuroectoderm anlage
has OBO namespace: fly_anatomy.ontology
has related synonym: Asn/A VenEc
id: FBbt:00004204
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: ventral ectoderm anlage
annotated property: definition
annotated target: Anlage that develops into the ventral ectoderm. It is found in the lateroventral trunk region of the embryo at the cellular blastoderm stage, prior to gastrulation (Stathopoulos and Newcomb, 2020).
database_cross_reference: FlyBase:FBrf0244630

Axiom
annotated source: ventral ectoderm anlage
annotated property: hasExactSynonym
annotated target: presumptive neuroectoderm
database_cross_reference: FlyBase:FBrf0244630

Axiom
annotated source: ventral ectoderm anlage
annotated property: hasExactSynonym
annotated target: ventral/neuroectoderm anlage
database_cross_reference: FlyBase:FBrf0244630

Axiom
annotated source: ventral ectoderm anlage
annotated property: hasRelatedSynonym
annotated target: Asn/A VenEc
database_cross_reference: https://orcid.org/0000-0002-7073-9172

developing embryonic structure
type: Class
equivalent class: Class
  intersection of: developing material anatomical entity
  intersection of: Restriction
    on property: overlaps
    some values from: embryo
subclass of: developing material anatomical entity
subclass of: Restriction
  on property: part of
  some values from: embryo
definition: Any developing material anatomical entity of the embryo.
database_cross_reference: UBERON:0002050
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004208
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: developing embryonic structure
annotated property: definition
annotated target: Any developing material anatomical entity of the embryo.
database_cross_reference: FBC:Autogenerated

late extended germ band embryo
type: Class
subclass of: extended germ band embryo
subclass of: Restriction
  on property: develops from
  some values from: early extended germ band embryo
definition: A collective term for stages 11 and 12.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004450
in subset: cur

Axiom
annotated source: late extended germ band embryo
annotated property: definition
annotated target: A collective term for stages 11 and 12.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

organ system
type: Class
subclass of: multicellular structure
subclass of: Restriction
  on property: part of
  some values from: organism
definition: A division of the whole organism into specialized systems.
database_cross_reference: UBERON:0000467
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004856
in subset: cur

Axiom
annotated source: organ system
annotated property: definition
annotated target: A division of the whole organism into specialized systems.
database_cross_reference: FBC:GG

reproductive system
type: Class
subclass of: organ system
subclass of: Restriction
  on property: has characteristic
  some values from: PATO_0002451
definition: System comprising the internal and external anatomy required for production of gametes and fertilization. It is sexually dimorphic.
database_cross_reference: UBERON:0000990
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004857
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: reproductive system
annotated property: definition
annotated target: System comprising the internal and external anatomy required for production of gametes and fertilization. It is sexually dimorphic.
database_cross_reference: FlyBase:FBrf0007735

gonad
type: Class
subclass of: multicellular structure
subclass of: Restriction
  on property: part of
  some values from: reproductive system
definition: The organ of the reproductive system in which the germ cells reside.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004858
in subset: FB gloss
in subset: cur

Axiom
annotated source: gonad
annotated property: definition
annotated target: The organ of the reproductive system in which the germ cells reside.
database_cross_reference: FBC:GG

germline cell
type: Class
subclass of: cell
definition: Cell that can contribute DNA to the next generation. It is or may become a gamete.
has OBO namespace: fly_anatomy.ontology
has related synonym: germ cell
id: FBbt:00004860
in subset: cur

Axiom
annotated source: germline cell
annotated property: definition
annotated target: Cell that can contribute DNA to the next generation. It is or may become a gamete.
database_cross_reference: FlyBase:FBrf0101973
database_cross_reference: FlyBase:FBrf0216027

germline stem cell
type: Class
subclass of: germline cell
subclass of: stem cell
subclass of: Restriction
  on property: develops from
  some values from: primordial germ cell
definition: Stem cell that is the precursor of gametes.
database_cross_reference: CL:0000014
has exact synonym: GSC
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004861
in subset: cur

Axiom
annotated source: germline stem cell
annotated property: definition
annotated target: Stem cell that is the precursor of gametes.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

Axiom
annotated source: germline stem cell
annotated property: hasExactSynonym
annotated target: GSC
database_cross_reference: FlyBase:FBrf0219716

female reproductive system
type: Class
equivalent class: Class
  intersection of: reproductive system
  intersection of: Restriction
    on property: part of
    some values from: female organism
subclass of: reproductive system
subclass of: female-specific anatomical entity
definition: Any reproductive system (FBbt:00004857) that is part of some female organism (FBbt:00007011).
database_cross_reference: UBERON:0000474
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004864
in subset: cur

Axiom
annotated source: female reproductive system
annotated property: definition
annotated target: Any reproductive system (FBbt:00004857) that is part of some female organism (FBbt:00007011).
database_cross_reference: FlyBase:FBrf0007735
database_cross_reference: FlyBase:FBrf0034074

ovary
type: Class
subclass of: gonad
subclass of: female-specific anatomical entity
subclass of: Restriction
  on property: part of
  some values from: adult
subclass of: Restriction
  on property: part of
  some values from: female reproductive system
subclass of: Restriction
  on property: develops from
  some values from: larval ovary
definition: Female gonad. It contains about 16-20 ovarioles.
database_cross_reference: UBERON:0000992
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004865
in subset: RD
in subset: cur

Axiom
annotated source: ovary
annotated property: definition
annotated target: Female gonad. It contains about 16-20 ovarioles.
database_cross_reference: FlyBase:FBrf0064777
database_cross_reference: FlyBase:FBrf0221547

germarium
type: Class
subclass of: multi-tissue structure
subclass of: female-specific anatomical entity
subclass of: Restriction
  on property: part of
  some values from: ovariole
definition: Anterior region of the ovariole, that is connected to posterior egg chambers.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004866
in subset: RD
in subset: cur

Axiom
annotated source: germarium
annotated property: definition
annotated target: Anterior region of the ovariole, that is connected to posterior egg chambers.
database_cross_reference: FlyBase:FBrf0064777

germarium region 1
type: Class
subclass of: portion of tissue
subclass of: female-specific anatomical entity
subclass of: Restriction
  on property: part of
  some values from: germarium
definition: Anterior region of the germarium where cysts start developing.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004867
in subset: RD
in subset: cur

Axiom
annotated source: germarium region 1
annotated property: definition
annotated target: Anterior region of the germarium where cysts start developing.
database_cross_reference: FlyBase:FBrf0064777

female germline stem cell
type: Class
subclass of: germline stem cell
subclass of: Restriction
  on property: part of
  some values from: germarium region 1
definition: Female germline cell and stem cell from which all other female germline cells develop. Each of its divisions gives rise to one cystoblast and one female germline stem cell.
database_cross_reference: CL:0000022
has exact synonym: female GSC
has exact synonym: oogonial cell
has exact synonym: oogonium
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004873
in subset: RD
in subset: cur

Axiom
annotated source: female germline stem cell
annotated property: definition
annotated target: Female germline cell and stem cell from which all other female germline cells develop. Each of its divisions gives rise to one cystoblast and one female germline stem cell.
database_cross_reference: FlyBase:FBrf0017959
database_cross_reference: https://orcid.org/0000-0002-7073-9172

Axiom
annotated source: female germline stem cell
annotated property: hasExactSynonym
annotated target: female GSC
database_cross_reference: FlyBase:FBrf0219716

Axiom
annotated source: female germline stem cell
annotated property: hasExactSynonym
annotated target: oogonial cell
database_cross_reference: FlyBase:FBrf0021038

germline cyst
type: Class
subclass of: multi-tissue structure
definition: A developing unit of gametogenesis consisting of germline cells encapsulated by a layer of somatic cells.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004875
in subset: cur

Axiom
annotated source: germline cyst
annotated property: definition
annotated target: A developing unit of gametogenesis consisting of germline cells encapsulated by a layer of somatic cells.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

cystoblast
type: Class
subclass of: female germline cell
subclass of: Restriction
  on property: part of
  some values from: germarium
subclass of: Restriction
  on property: develops from
  some values from: female germline stem cell
definition: Female germline cell which is the daughter of a female germline stem cell. It is found in region 1 of the germarium. It divides four times to give rise to 16 daughter cyst cells, which together form a germline cyst. Division is through a cleavage-like process, with the daughter cells being smaller than the parent cystoblast.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004876
in subset: RD
in subset: cur

Axiom
annotated source: cystoblast
annotated property: definition
annotated target: Female germline cell which is the daughter of a female germline stem cell. It is found in region 1 of the germarium. It divides four times to give rise to 16 daughter cyst cells, which together form a germline cyst. Division is through a cleavage-like process, with the daughter cells being smaller than the parent cystoblast.
database_cross_reference: FlyBase:FBrf0064777

cyst cell of ovary
type: Class
subclass of: female germline cell
subclass of: Restriction
  on property: part of
  some values from: female germline cyst
subclass of: Restriction
  on property: develops from
  some values from: cystoblast
definition: Female germline cell born during one of four rapid rounds of cell division following the birth of a cystoblast from a female germline stem cell until the point where one of the resulting 16 cells (the presumptive oocyte) enters meiosis. Cyst cells are interconnected by ring canals, resulting from incomplete cytokinesis during cell division. The oocyte develops from one of the two cyst cells that have connections to four other cyst cells, the other 15 cyst cells differentiate into nurse cells.
has broad synonym: cyst cell
has exact synonym: cystocyte
has exact synonym: germarial cystocyte
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004877
in subset: RD
in subset: cur

Axiom
annotated source: cyst cell of ovary
annotated property: definition
annotated target: Female germline cell born during one of four rapid rounds of cell division following the birth of a cystoblast from a female germline stem cell until the point where one of the resulting 16 cells (the presumptive oocyte) enters meiosis. Cyst cells are interconnected by ring canals, resulting from incomplete cytokinesis during cell division. The oocyte develops from one of the two cyst cells that have connections to four other cyst cells, the other 15 cyst cells differentiate into nurse cells.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0064777

Axiom
annotated source: cyst cell of ovary
annotated property: hasExactSynonym
annotated target: cystocyte
database_cross_reference: FlyBase:FBrf0064777

Axiom
annotated source: cyst cell of ovary
annotated property: hasExactSynonym
annotated target: germarial cystocyte
database_cross_reference: FlyBase:FBrf0021038

oocyte
type: Class
subclass of: female germline cell
subclass of: Restriction
  on property: part of
  some values from: egg chamber
subclass of: Restriction
  on property: develops from
  some values from: presumptive oocyte
definition: Female germline cell that develops from one of the 16 cyst cells (the presumptive oocyte) produced by a cystoblast. It matures in an egg chamber of the ovariole and will be released from the ovary as an egg.
database_cross_reference: CL:0000023
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004886
in subset: RD
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: oocyte
annotated property: definition
annotated target: Female germline cell that develops from one of the 16 cyst cells (the presumptive oocyte) produced by a cystoblast. It matures in an egg chamber of the ovariole and will be released from the ovary as an egg.
database_cross_reference: FlyBase:FBrf0021038

pole plasm
type: Class
subclass of: cell component
subclass of: Restriction
  on property: part of
  some values from: egg
subclass of: Restriction
  on property: part of
  some values from: oocyte
subclass of: Restriction
  on property: part of
  some values from: pre-blastoderm embryo
definition: Specialized region of the posterior egg/embryo cytoplasm characterized by the presence of non-membrane limited electron dense bodies (polar granules) (Okada, 1998).
has narrow synonym: germ plasm
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004891
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: pole plasm
annotated property: definition
annotated target: Specialized region of the posterior egg/embryo cytoplasm characterized by the presence of non-membrane limited electron dense bodies (polar granules) (Okada, 1998).
database_cross_reference: FlyBase:FBrf0064781
database_cross_reference: FlyBase:FBrf0101973

Axiom
annotated source: pole plasm
annotated property: hasNarrowSynonym
annotated target: germ plasm
database_cross_reference: FlyBase:FBrf0101973

ovariole
type: Class
subclass of: female-specific anatomical entity
subclass of: multicellular structure
subclass of: Restriction
  on property: part of
  some values from: ovary
definition: An egg assembly line. Consists of a germarium at the anterior tip connected to a chain of egg chambers, each one more mature than the preceding, more anterior egg chamber in the chain. Each ovariole is encased in an ovarian sheath. A typical ovary contains about 16 ovarioles.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004893
in subset: RD
in subset: cur
comment: DISAMBIGUATION: The term ovariole is sometimes incorrectly used to refer to individual egg chambers. Please use the term 'egg chamber' for this.

Axiom
annotated source: ovariole
annotated property: definition
annotated target: An egg assembly line. Consists of a germarium at the anterior tip connected to a chain of egg chambers, each one more mature than the preceding, more anterior egg chamber in the chain. Each ovariole is encased in an ovarian sheath. A typical ovary contains about 16 ovarioles.
database_cross_reference: FlyBase:FBrf0064777

egg chamber
type: Class
subclass of: female germline cyst
definition: Female germline cyst that forms as the 16-cell cyst moves posteriorly through the germarium, becoming encapsulated in follicle cells (Spradling, 1993). Its formation is completed in germarium region 3, where it buds off from the germarium and progresses posteriorly along the ovariole (Spradling, 1993, Reichmann and Ephrussi, 2001).
database_cross_reference: UBERON:0003199
has exact synonym: follicle
has exact synonym: germarium derived egg chamber
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004894
in subset: FB gloss
in subset: RD
in subset: cur

Axiom
annotated source: egg chamber
annotated property: definition
annotated target: Female germline cyst that forms as the 16-cell cyst moves posteriorly through the germarium, becoming encapsulated in follicle cells (Spradling, 1993). Its formation is completed in germarium region 3, where it buds off from the germarium and progresses posteriorly along the ovariole (Spradling, 1993, Reichmann and Ephrussi, 2001).
database_cross_reference: FlyBase:FBrf0064777

Axiom
annotated source: egg chamber
annotated property: hasExactSynonym
annotated target: follicle
database_cross_reference: FlyBase:FBrf0089570

Axiom
annotated source: egg chamber
annotated property: hasExactSynonym
annotated target: germarium derived egg chamber
database_cross_reference: FlyBase:FBrf0089570

integumentary system
type: Class
subclass of: organ system
definition: The organ system that forms the covering layer of the animal.
database_cross_reference: UBERON:0002416
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004969
in subset: FB gloss
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: integumentary system
annotated property: definition
annotated target: The organ system that forms the covering layer of the animal.
database_cross_reference: FBC:GG

cuticle
type: Class
subclass of: acellular anatomical structure
subclass of: Restriction
  on property: part of
  some values from: integumentary system
subclass of: Restriction
  on property: develops from
  some values from: epidermis
definition: The outer non-living layer of the integumentary system that is secreted by the underlying epidermis.
database_cross_reference: UBERON:0001001
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004970
in subset: FB gloss
in subset: cur

Axiom
annotated source: cuticle
annotated property: definition
annotated target: The outer non-living layer of the integumentary system that is secreted by the underlying epidermis.
database_cross_reference: FlyBase:FBrf0064790

trichome
type: Class
subclass of: cuticular specialization
definition: Non-innervated projection of the cuticle around an actin-rich cellular process of an underlying epidermal cell.
database_cross_reference: UBERON:6004979
has OBO namespace: fly_anatomy.ontology
has related synonym: cell hair
id: FBbt:00004979
in subset: cur

Axiom
annotated source: trichome
annotated property: definition
annotated target: Non-innervated projection of the cuticle around an actin-rich cellular process of an underlying epidermal cell.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

embryonic/larval cuticle
type: Class
subclass of: cuticle
subclass of: Restriction
  on property: part of
  some values from: larval integumentary system
definition: Cuticle of the late embryo or larva.
database_cross_reference: UBERON:6004983
has exact synonym: larval cuticle
has OBO namespace: fly_anatomy.ontology
id: FBbt:00004983
in subset: cur

Axiom
annotated source: embryonic/larval cuticle
annotated property: definition
annotated target: Cuticle of the late embryo or larva.
database_cross_reference: FlyBase:FBrf0234504

epidermis
type: Class
subclass of: cuboidal/columnar epithelium
subclass of: Restriction
  on property: part of
  some values from: integumentary system
definition: Tissue composed of epithelial cells. It secretes and underlies the cuticle.
database_cross_reference: UBERON:0007376
has OBO namespace: fly_anatomy.ontology
has related synonym: hypoderm
has related synonym: hypodermis
id: FBbt:00004993
in subset: FB gloss
in subset: cur

Axiom
annotated source: epidermis
annotated property: definition
annotated target: Tissue composed of epithelial cells. It secretes and underlies the cuticle.
database_cross_reference: FlyBase:FBrf0064790

epidermoblast
type: Class
subclass of: developing embryonic structure
subclass of: somatic precursor cell
subclass of: Restriction
  on property: part of
  some values from: epidermis
subclass of: Restriction
  on property: part of
  some values from: late embryo
subclass of: Restriction
  on property: part of
  some values from: ventral epidermis primordium
definition: Progenitor of an epidermal cell.
database_cross_reference: CL:0000464
has OBO namespace: fly_anatomy.ontology
has related synonym: dermoblasts
id: FBbt:00004994
in subset: cur

Axiom
annotated source: epidermoblast
annotated property: definition
annotated target: Progenitor of an epidermal cell.
database_cross_reference: FlyBase:FBrf0078160

tracheal system
type: Class
subclass of: BFO_0000040
subclass of: organ system
subclass of: Restriction
  on property: capable of
  some values from: GO_0007585
definition: Air-filled network of tracheae, opening to the exterior via spiracles and containing minute tracheoles where gaseous exchange between air and tissues occurs (Miller, 1950).
database_cross_reference: UBERON:0005155
has exact synonym: respiratory system
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005024
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: tracheal system
annotated property: definition
annotated target: Air-filled network of tracheae, opening to the exterior via spiracles and containing minute tracheoles where gaseous exchange between air and tissues occurs (Miller, 1950).
database_cross_reference: FlyBase:FBrf0007735
database_cross_reference: FlyBase:FBrf0064787

Axiom
annotated source: tracheal system
annotated property: hasExactSynonym
annotated target: respiratory system
database_cross_reference: FlyBase:FBrf0007735

tracheocyte
type: Class
subclass of: epithelial cell
subclass of: Restriction
  on property: part of
  some values from: tracheal system
definition: Epithelial cell of the tracheal epithelium.
database_cross_reference: CL:0008026
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005038
in subset: cur
in subset: scrnaseq slim

Axiom
annotated source: tracheocyte
annotated property: definition
annotated target: Epithelial cell of the tracheal epithelium.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

larval tracheocyte
type: Class
equivalent class: Class
  intersection of: tracheocyte
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: tracheocyte
subclass of: larval epithelial cell
subclass of: Restriction
  on property: part of
  some values from: larval tracheal system
definition: Any tracheocyte of the larva.
has exact synonym: embryonic/larval tracheocyte
has OBO namespace: fly_anatomy.ontology
has related synonym: larval tracheal cell
id: FBbt:00005039

Axiom
annotated source: larval tracheocyte
annotated property: definition
annotated target: Any tracheocyte of the larva.
database_cross_reference: FBC:Autogenerated

adult tracheocyte
type: Class
equivalent class: Class
  intersection of: tracheocyte
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: tracheocyte
subclass of: adult epithelial cell
subclass of: Restriction
  on property: part of
  some values from: adult tracheal system
definition: Any tracheocyte of the adult.
has OBO namespace: fly_anatomy.ontology
has related synonym: adult tracheal cell
id: FBbt:00005040
in subset: cur

Axiom
annotated source: adult tracheocyte
annotated property: definition
annotated target: Any tracheocyte of the adult.
database_cross_reference: FBC:Autogenerated

tracheal precursor cell
type: Class
subclass of: developing embryonic structure
subclass of: somatic precursor cell
subclass of: Restriction
  on property: part of
  some values from: larval tracheal system
definition: Somatic cell that gives rise to the larval trachea. At embryonic stage 10 the tracheal precursor cells form ectodermal placodes that invaginate to form the tracheal pits by early stage 11. After invagination, the cells in the pit become tracheal cells and begin to form branches, the epidermis fuses, closing the pit and leaving a spiracular branch joining the trachea to the epidermis.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005041
in subset: cur

Axiom
annotated source: tracheal precursor cell
annotated property: definition
annotated target: Somatic cell that gives rise to the larval trachea. At embryonic stage 10 the tracheal precursor cells form ectodermal placodes that invaginate to form the tracheal pits by early stage 11. After invagination, the cells in the pit become tracheal cells and begin to form branches, the epidermis fuses, closing the pit and leaving a spiracular branch joining the trachea to the epidermis.
database_cross_reference: FlyBase:FBrf0064787

digestive system
type: Class
subclass of: organ system
definition: Organ system comprising the alimentary canal and its associated organs, including the mouthparts, labellar and salivary glands and the Malpighian tubules (Miller, 1950).
database_cross_reference: UBERON:0001007
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005055
in subset: FB gloss
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: digestive system
annotated property: definition
annotated target: Organ system comprising the alimentary canal and its associated organs, including the mouthparts, labellar and salivary glands and the Malpighian tubules (Miller, 1950).
database_cross_reference: FlyBase:FBrf0007735

excretory system
type: Class
subclass of: organ system
definition: The system of organs and cells involved in the excretion of waste products.
database_cross_reference: UBERON:0001008
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005056
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: excretory system
annotated property: definition
annotated target: The system of organs and cells involved in the excretion of waste products.
database_cross_reference: FlyBase:FBrf0064792

circulatory system
type: Class
subclass of: organ system
definition: System that functions to circulate hemolymph throughout the body. It is an open circulatory system, consisting of the dorsal vessel, body cavity, accessory pulsatile organs and the hemolymph (Miller, 1950).
database_cross_reference: UBERON:0009054
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005057
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: circulatory system
annotated property: definition
annotated target: System that functions to circulate hemolymph throughout the body. It is an open circulatory system, consisting of the dorsal vessel, body cavity, accessory pulsatile organs and the hemolymph (Miller, 1950).
database_cross_reference: FlyBase:FBrf0007735

prohemocyte
type: Class
subclass of: somatic precursor cell
subclass of: mesodermal derivative
definition: An immature hemocyte. It is highly basophilic, with a round to polygonal morphology and measures approximately 4 to 6 micrometers in diameter (Shrestha and Gateff, 1982). The nucleus is rich in nucleoli and is surrounded by a thin band of ribosome-rich cytoplasm (Shrestha and Gateff, 1982). In the larva, these cells can be found in the lymph gland primary lobe, or in circulation (Lanot et al., 2001).
database_cross_reference: CL:0000385
has exact synonym: HSC
has exact synonym: Pr
has exact synonym: blast cell
has exact synonym: hematopoietic precursor cell
has exact synonym: polygonal cell
has exact synonym: prohaemocyte
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005062
in subset: cur

Axiom
annotated source: prohemocyte
annotated property: definition
annotated target: An immature hemocyte. It is highly basophilic, with a round to polygonal morphology and measures approximately 4 to 6 micrometers in diameter (Shrestha and Gateff, 1982). The nucleus is rich in nucleoli and is surrounded by a thin band of ribosome-rich cytoplasm (Shrestha and Gateff, 1982). In the larva, these cells can be found in the lymph gland primary lobe, or in circulation (Lanot et al., 2001).
database_cross_reference: FlyBase:FBrf0074444
database_cross_reference: FlyBase:FBrf0134542

Axiom
annotated source: prohemocyte
annotated property: hasExactSynonym
annotated target: HSC
database_cross_reference: FlyBase:FBrf0228311

Axiom
annotated source: prohemocyte
annotated property: hasExactSynonym
annotated target: Pr
database_cross_reference: FlyBase:FBrf0066479

Axiom
annotated source: prohemocyte
annotated property: hasExactSynonym
annotated target: blast cell
database_cross_reference: FlyBase:FBrf0134542

Axiom
annotated source: prohemocyte
annotated property: hasExactSynonym
annotated target: hematopoietic precursor cell
database_cross_reference: FlyBase:FBrf0228311

Axiom
annotated source: prohemocyte
annotated property: hasExactSynonym
annotated target: polygonal cell
database_cross_reference: FlyBase:FBrf0036192

Axiom
annotated source: prohemocyte
annotated property: hasExactSynonym
annotated target: prohaemocyte
database_cross_reference: FlyBase:FBrf0066479

hemocyte
type: Class
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: circulatory system
subclass of: Restriction
  on property: expresses
  some values from: FBgn0028430
definition: Blood cell of the circulatory system that is involved in the cellular immune response. It expresses Hemese, a pan-hemocyte marker (Tattikota et al., 2020).
database_cross_reference: CL:0000387
has exact synonym: haemocyte
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005063
in subset: cur
in subset: scrnaseq slim

Axiom
annotated source: hemocyte
annotated property: definition
annotated target: Blood cell of the circulatory system that is involved in the cellular immune response. It expresses Hemese, a pan-hemocyte marker (Tattikota et al., 2020).
database_cross_reference: FlyBase:FBrf0200434
database_cross_reference: FlyBase:FBrf0245741

muscle system
type: Class
subclass of: organ system
definition: System of contractile somatic and visceral muscle fibers arranged in groups and layers (Miller, 1950).
has exact synonym: muscular system
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005069
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: muscle system
annotated property: definition
annotated target: System of contractile somatic and visceral muscle fibers arranged in groups and layers (Miller, 1950).
database_cross_reference: FlyBase:FBrf0007735
database_cross_reference: FlyBase:FBrf0031016
database_cross_reference: FlyBase:FBrf0041814
database_cross_reference: FlyBase:FBrf0044229
database_cross_reference: FlyBase:FBrf0064793

Axiom
annotated source: muscle system
annotated property: hasExactSynonym
annotated target: muscular system
database_cross_reference: FlyBase:FBrf0007735

visceral muscle cell
type: Class
subclass of: muscle cell
definition: Muscle cell of a muscle that moves the viscera, usually with a peristaltic or compressing function, and has only one or, commonly no attachment to the body wall. Visceral muscles differ from somatic muscles in several respects: adjacent fibers are held together by desmosomes, each fiber is uninucleate and the contractile material is not grouped into fibrils but packs the whole fiber. The visceral musculature comprises musculature of the intestine, reproductive system and circulatory system (Miller, 1950). The circular fibers derive from a bilaterally symmetrical band of mesodermal cells extending continuously throughout most of the germ band. The longitudinal fibers derive from clusters of mesodermal cells which appear during stage 12 at the posterior end of the embryo and migrate anteriorly.
has broad synonym: smooth muscle
database_cross_reference: CL:0008007
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005070
in subset: cur
comment: It is quite common to refer to visceral muscles as smooth muscles, by analogy with vertebrates; however most visceral (and somatic) muscles in Drosophila are actually striated (Miller, 1950; Bate, 1993).

Axiom
annotated source: visceral muscle cell
annotated property: definition
annotated target: Muscle cell of a muscle that moves the viscera, usually with a peristaltic or compressing function, and has only one or, commonly no attachment to the body wall. Visceral muscles differ from somatic muscles in several respects: adjacent fibers are held together by desmosomes, each fiber is uninucleate and the contractile material is not grouped into fibrils but packs the whole fiber. The visceral musculature comprises musculature of the intestine, reproductive system and circulatory system (Miller, 1950). The circular fibers derive from a bilaterally symmetrical band of mesodermal cells extending continuously throughout most of the germ band. The longitudinal fibers derive from clusters of mesodermal cells which appear during stage 12 at the posterior end of the embryo and migrate anteriorly.
database_cross_reference: FlyBase:FBrf0007735
database_cross_reference: FlyBase:FBrf0064793
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0239227

somatic muscle cell
type: Class
equivalent class: Class
  intersection of: muscle cell
  intersection of: Restriction
    on property: part of
    some values from: somatic muscle
subclass of: muscle cell
subclass of: syncytium
subclass of: Restriction
  on property: part of
  some values from: somatic muscle
definition: Muscle cell that serves to change the position of some part of the body. These cells are usually attached to the body wall. Fibers of somatic muscles are multinucleate, with the contractile material grouped into fibrils.
database_cross_reference: CL:0008004
has exact synonym: Somatic and visceral muscles appear striated (Miller, 1950).
has exact synonym: skeletal muscle cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005073
in subset: cur

Axiom
annotated source: somatic muscle cell
annotated property: definition
annotated target: Muscle cell that serves to change the position of some part of the body. These cells are usually attached to the body wall. Fibers of somatic muscles are multinucleate, with the contractile material grouped into fibrils.
database_cross_reference: FlyBase:FBrf0007735
database_cross_reference: FlyBase:FBrf0239227
database_cross_reference: FlyBase:FBrf0239342

muscle cell
type: Class
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: muscle system
definition: Somatic, contractile cell that makes up a muscle. It is formed by several fusion events between fusion competent myoblasts and one founder cell.
database_cross_reference: CL:0000187
has OBO namespace: fly_anatomy.ontology
has related synonym: muscle fiber
has related synonym: myofiber
has related synonym: myofibril
id: FBbt:00005074
in subset: cur
in subset: scrnaseq slim
comment: In contrast to vertebrates, in Drosophila embryos and larva, each muscle is a single myotube (Maqbool and Jagla, 2007).

Axiom
annotated source: muscle cell
annotated property: definition
annotated target: Somatic, contractile cell that makes up a muscle. It is formed by several fusion events between fusion competent myoblasts and one founder cell.
database_cross_reference: FlyBase:FBrf0051585
database_cross_reference: FlyBase:FBrf0205186
database_cross_reference: FlyBase:FBrf0217289

Axiom
annotated source: muscle cell
annotated property: hasRelatedSynonym
annotated target: muscle fiber
database_cross_reference: FlyBase:FBrf0217289

Axiom
annotated source: muscle cell
annotated property: hasRelatedSynonym
annotated target: myofiber
database_cross_reference: FlyBase:FBrf0217289

Axiom
annotated source: muscle cell
annotated property: hasRelatedSynonym
annotated target: myofibril
database_cross_reference: FlyBase:FBrf0212347

myoblast
type: Class
subclass of: somatic precursor cell
definition: Muscle progenitor cell.
database_cross_reference: CL:0000056
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005083
in subset: cur

Axiom
annotated source: myoblast
annotated property: definition
annotated target: Muscle progenitor cell.
database_cross_reference: FlyBase:FBrf0217289

apodeme
type: Class
subclass of: integumentary specialization
definition: A cuticular ingrowth of the exoskeleton, sometimes only a peg, frequently ridge-like, and often serving as a muscle attachment site. Does not generally correspond to superficial invaginations.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005091
in subset: FB gloss
in subset: cur

Axiom
annotated source: apodeme
annotated property: definition
annotated target: A cuticular ingrowth of the exoskeleton, sometimes only a peg, frequently ridge-like, and often serving as a muscle attachment site. Does not generally correspond to superficial invaginations.
database_cross_reference: FlyBase:FBrf0111704
database_cross_reference: FlyBase:FBrf0166419
database_cross_reference: FlyBase:FBrf0230923

nervous system
type: Class
subclass of: organ system
definition: All the nerve centers and nerve fibers in the central, visceral and peripheral nervous systems.
database_cross_reference: UBERON:0001016
database_cross_reference: VFB:FBbt_00005093
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005093
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: nervous system
annotated property: definition
annotated target: All the nerve centers and nerve fibers in the central, visceral and peripheral nervous systems.
database_cross_reference: FlyBase:FBrf0166419

central nervous system
type: Class
subclass of: organ system subdivision
subclass of: Restriction
  on property: part of
  some values from: nervous system
definition: Collective name for all the nerve centers and their connective in the insect's body. In the context of Drosophila refers to the part of the nervous system consisting of the brain and ventral ganglia.
database_cross_reference: UBERON:0001017
database_cross_reference: VFB:FBbt_00005094
has OBO namespace: fly_anatomy.ontology
has related synonym: CNS
id: FBbt:00005094
in subset: FB gloss
in subset: cur

Axiom
annotated source: central nervous system
annotated property: definition
annotated target: Collective name for all the nerve centers and their connective in the insect's body. In the context of Drosophila refers to the part of the nervous system consisting of the brain and ventral ganglia.
database_cross_reference: FBC:GG
database_cross_reference: FlyBase:FBrf0166419

peripheral nervous system
type: Class
subclass of: organ system subdivision
subclass of: Restriction
  on property: part of
  some values from: nervous system
definition: The outer parts of the nervous system that perform sensory and motor functions.
database_cross_reference: UBERON:0000010
database_cross_reference: VFB:FBbt_00005098
has OBO namespace: fly_anatomy.ontology
has related synonym: PNS
id: FBbt:00005098
in subset: FB gloss
in subset: cur

Axiom
annotated source: peripheral nervous system
annotated property: definition
annotated target: The outer parts of the nervous system that perform sensory and motor functions.
database_cross_reference: FBC:GG
database_cross_reference: FlyBase:FBrf0064796

neuron
type: Class
equivalent class: Class
  intersection of: CL_0000540
  intersection of: Restriction
    on property: part of
    some values from: Drosophila melanogaster
subclass of: CL_0000540
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: nervous system
definition: Electrically active cell of the nervous system which has an axon and/or dendrite and which is synapsed with other cells and/or has other cells synapsed to it.
database_cross_reference: CL:0000540
database_cross_reference: VFB:FBbt_00005106
has OBO namespace: fly_anatomy.ontology
has related synonym: nerve cell
id: FBbt:00005106
in subset: EmbDevSlim
in subset: FB gloss
in subset: cur
in subset: larval OF
in subset: scrnaseq slim

Axiom
annotated source: neuron
annotated property: definition
annotated target: Electrically active cell of the nervous system which has an axon and/or dendrite and which is synapsed with other cells and/or has other cells synapsed to it.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

glial cell
type: Class
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: nervous system
subclass of: Restriction
  on property: develops from
  some values from: glioblast
definition: A supporting cell of the nervous system.
database_cross_reference: CL:0000125
database_cross_reference: VFB:FBbt_00005144
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005144
in subset: FB gloss
in subset: cur
in subset: scrnaseq slim

Axiom
annotated source: glial cell
annotated property: definition
annotated target: A supporting cell of the nervous system.
database_cross_reference: FBC:GG

glioblast
type: Class
subclass of: neuroblast
definition: Progenitor cell that gives rise only to glial cells and not neurons (Hartenstein, 2011).
database_cross_reference: CL:0000340
database_cross_reference: VFB:FBbt_00005145
has exact synonym: glial precursor cell
has OBO namespace: fly_anatomy.ontology
has related synonym: GP
id: FBbt:00005145
in subset: cur

Axiom
annotated source: glioblast
annotated property: definition
annotated target: Progenitor cell that gives rise only to glial cells and not neurons (Hartenstein, 2011).
database_cross_reference: FlyBase:FBrf0064795
database_cross_reference: FlyBase:FBrf0214261

Axiom
annotated source: glioblast
annotated property: hasRelatedSynonym
annotated target: GP
database_cross_reference: FlyBase:FBrf0055900

neuroblast
type: Class
subclass of: somatic stem cell
IAO_0000028: NB
definition: Precursor of the central nervous system that derives from the neurogenic region of the ectoderm or the mesectoderm (Doe, 1992; Schmid et al., 1999; Crews, 2019). It produces neurons and/or glia (Doe, 1992; Beckervordersandforth et al., 2008). Neuroblasts may also divide during adult life to regenerate the adult brain (Fernandez-Hernandez et al., 2013).
database_cross_reference: CL:0000338
database_cross_reference: VFB:FBbt_00005146
has exact synonym: NB
has exact synonym: neural stem cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005146
in subset: EmbDevSlim
in subset: FB gloss
in subset: cur
comment: Adult neurogenesis demonstrated in the adult optic lobe in response to injury (Fernandez-Hernandez et al., 2013).

Axiom
annotated source: neuroblast
annotated property: definition
annotated target: Precursor of the central nervous system that derives from the neurogenic region of the ectoderm or the mesectoderm (Doe, 1992; Schmid et al., 1999; Crews, 2019). It produces neurons and/or glia (Doe, 1992; Beckervordersandforth et al., 2008). Neuroblasts may also divide during adult life to regenerate the adult brain (Fernandez-Hernandez et al., 2013).
database_cross_reference: FlyBase:FBrf0055900
database_cross_reference: FlyBase:FBrf0112030
database_cross_reference: FlyBase:FBrf0205499
database_cross_reference: FlyBase:FBrf0222020
database_cross_reference: FlyBase:FBrf0244240

Axiom
annotated source: neuroblast
annotated property: hasExactSynonym
annotated target: NB
has synonym type: VFB SYMBOL

Axiom
annotated source: neuroblast
annotated property: hasExactSynonym
annotated target: neural stem cell
database_cross_reference: FlyBase:FBrf0211926

midgut primordium
type: Class
subclass of: primordium
definition: Any primordium that is a precursor of all or some part of the larval or adult midgut.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005246
in subset: cur

Axiom
annotated source: midgut primordium
annotated property: definition
annotated target: Any primordium that is a precursor of all or some part of the larval or adult midgut.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

proplasmatocyte
type: Class
subclass of: prohemocyte
definition: An immature plasmatocyte.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005249
in subset: cur
comment: Existence uncertain, may not differ from prohemocytes in general. This cell type is not mentioned in Lanot et al., 2001.

Axiom
annotated source: proplasmatocyte
annotated property: definition
annotated target: An immature plasmatocyte.
database_cross_reference: FlyBase:FBrf0167476
database_cross_reference: https://orcid.org/0000-0002-7073-9172

pre-blastoderm embryo
type: Class
subclass of: embryo
definition: Embryo prior to the formation of the syncitial blastoderm, shortly after nuclear cycle 9 (Foe and Alberts, 1983; Jaeger et al., 2012). This period lasts from fertilization to the end of embryonic stage 3 (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FBdv:00005290
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005290

Axiom
annotated source: pre-blastoderm embryo
annotated property: definition
annotated target: Embryo prior to the formation of the syncitial blastoderm, shortly after nuclear cycle 9 (Foe and Alberts, 1983; Jaeger et al., 2012). This period lasts from fertilization to the end of embryonic stage 3 (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0039741
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0220623

stage 1 embryo
type: Class
subclass of: cleavage stage embryo
subclass of: pre-blastoderm embryo
definition: Nuclear divisions 1 and 2. Duration at 25 degrees C: approximately 25 minutes (0-25 minutes after egg laying).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005291
in subset: deprecated
comment: DEPRECATION WARNING.

Axiom
annotated source: stage 1 embryo
annotated property: definition
annotated target: Nuclear divisions 1 and 2. Duration at 25 degrees C: approximately 25 minutes (0-25 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

stage 2 embryo
type: Class
subclass of: cleavage stage embryo
subclass of: pre-blastoderm embryo
subclass of: Restriction
  on property: develops from
  some values from: stage 1 embryo
definition: Nuclear divisions 3-8. The egg cytoplasm contracts producing a clear separation from the vitelline membrane and empty spaces at the anterior and posterior. The cleavage nuclei migrate towards the periphery. Duration at 25 degrees C approximately 40 minutes (25-65 minutes AEL).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005293
in subset: deprecated
comment: DEPRECATION WARNING.

Axiom
annotated source: stage 2 embryo
annotated property: definition
annotated target: Nuclear divisions 3-8. The egg cytoplasm contracts producing a clear separation from the vitelline membrane and empty spaces at the anterior and posterior. The cleavage nuclei migrate towards the periphery. Duration at 25 degrees C approximately 40 minutes (25-65 minutes AEL).
database_cross_reference: FlyBase:FBrf0089570

stage 3 embryo
type: Class
subclass of: cleavage stage embryo
subclass of: syncytial blastoderm embryo
subclass of: Restriction
  on property: develops from
  some values from: stage 2 embryo
definition: Nuclear division 9. The cleavage nuclei complete there migration to the periphery. Polar buds form at the posterior pole and divide once. Duration at 25 degrees C: approximately 15 minutes (65-80 minutes after egg laying).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005301
in subset: deprecated
comment: DEPRECATION WARNING.

Axiom
annotated source: stage 3 embryo
annotated property: definition
annotated target: Nuclear division 9. The cleavage nuclei complete there migration to the periphery. Polar buds form at the posterior pole and divide once. Duration at 25 degrees C: approximately 15 minutes (65-80 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

blastoderm embryo
type: Class
subclass of: embryo
definition: Embryo during the blastoderm stage, where most nuclei are found at the cortex (periphery) of the embryo (Foe and Alberts, 1983; Jaeger et al., 2012). The blastoderm stage begins shortly after completion of the ninth cleavage division and lasts until the onset of gastrulation, including cleavage cycles 10-14A (Foe and Alberts, 1983; Jaeger et al., 2012). This corresponds to embryonic stages 4 (syncitial blastoderm stage) and 5 (cellular blastoderm stage) (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FBdv:00005304
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005304

Axiom
annotated source: blastoderm embryo
annotated property: definition
annotated target: Embryo during the blastoderm stage, where most nuclei are found at the cortex (periphery) of the embryo (Foe and Alberts, 1983; Jaeger et al., 2012). The blastoderm stage begins shortly after completion of the ninth cleavage division and lasts until the onset of gastrulation, including cleavage cycles 10-14A (Foe and Alberts, 1983; Jaeger et al., 2012). This corresponds to embryonic stages 4 (syncitial blastoderm stage) and 5 (cellular blastoderm stage) (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0039741
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0220623

syncytial blastoderm embryo
type: Class
subclass of: blastoderm embryo
definition: A blastoderm embryo prior to cellularization (corresponds to embryonic stages 3 and 4).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005305
in subset: cur
in subset: deprecated
comment: DEPRECATION WARNING.

Axiom
annotated source: syncytial blastoderm embryo
annotated property: definition
annotated target: A blastoderm embryo prior to cellularization (corresponds to embryonic stages 3 and 4).
database_cross_reference: FBC:GG
database_cross_reference: https://orcid.org/0000-0002-7073-9172

stage 4 embryo
type: Class
subclass of: cleavage stage embryo
subclass of: syncytial blastoderm embryo
subclass of: Restriction
  on property: develops from
  some values from: stage 3 embryo
definition: Nuclear division 10-13. Polar buds divide twice and become tightly grouped at the posterior pole by the end of this stage. Nuclei visible at the rim of the embryo. Stage 4 ends with the beginning of cellularization. Duration at 25 degrees C: approximately 50 minutes (80-130 minutes after egg laying).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005306
in subset: deprecated
comment: DEPRECATION WARNING.

Axiom
annotated source: stage 4 embryo
annotated property: definition
annotated target: Nuclear division 10-13. Polar buds divide twice and become tightly grouped at the posterior pole by the end of this stage. Nuclei visible at the rim of the embryo. Stage 4 ends with the beginning of cellularization. Duration at 25 degrees C: approximately 50 minutes (80-130 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

stage 5 embryo
type: Class
subclass of: blastoderm embryo
subclass of: Restriction
  on property: develops from
  some values from: stage 4 embryo
definition: Stage 5 begins when cellularization starts. Near the end of this stage the pole cells begin to migrate dorsally and ventral midline cells acquire an irregular, wavy appearance. Stage 5 ends when ventral furrow formation becomes apparent. Duration at 25 degrees C: approximately 40 minutes (130-170 minutes after egg laying).
has OBO namespace: fly_anatomy.ontology
has related synonym: cellular blastoderm embryo
id: FBbt:00005311
in subset: deprecated
comment: DEPRECATION WARNING.

Axiom
annotated source: stage 5 embryo
annotated property: definition
annotated target: Stage 5 begins when cellularization starts. Near the end of this stage the pole cells begin to migrate dorsally and ventral midline cells acquire an irregular, wavy appearance. Stage 5 ends when ventral furrow formation becomes apparent. Duration at 25 degrees C: approximately 40 minutes (130-170 minutes after egg laying).
database_cross_reference: FBC:MA
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: https://orcid.org/0000-0002-7073-9172

gastrula embryo
type: Class
subclass of: embryo
subclass of: Restriction
  on property: develops from
  some values from: blastoderm embryo
definition: Embryo that is in the process of gastrulation (encompassing embryonic stages 6-8), during which complex morphogenetic movements result in the formation of the three germ layers; ectoderm, mesoderm and endoderm (Hartenstein, 1993).
database_cross_reference: FBdv:00005317
database_cross_reference: UBERON:0004734
has exact synonym: gastrulation stage embryo
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005317

Axiom
annotated source: gastrula embryo
annotated property: definition
annotated target: Embryo that is in the process of gastrulation (encompassing embryonic stages 6-8), during which complex morphogenetic movements result in the formation of the three germ layers; ectoderm, mesoderm and endoderm (Hartenstein, 1993).
database_cross_reference: FlyBase:FBrf0064803

stage 6 embryo
type: Class
subclass of: gastrula embryo
subclass of: Restriction
  on property: develops from
  some values from: stage 5 embryo
definition: Stage 6 begins when the ventral furrow becomes apparent, an event which is followed rapidly by the formation of the cephalic furrow. Stage 6 ends when the pole cells have adopted a dorsal (horizontal) position at the posterior. Duration at 25 degrees C: approximately 10 minutes (170-180 minutes after egg laying).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005318
in subset: deprecated
comment: DEPRECATION WARNING.

Axiom
annotated source: stage 6 embryo
annotated property: definition
annotated target: Stage 6 begins when the ventral furrow becomes apparent, an event which is followed rapidly by the formation of the cephalic furrow. Stage 6 ends when the pole cells have adopted a dorsal (horizontal) position at the posterior. Duration at 25 degrees C: approximately 10 minutes (170-180 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

stage 7 embryo
type: Class
subclass of: gastrula embryo
subclass of: Restriction
  on property: develops from
  some values from: stage 6 embryo
definition: Stage 7 begins when the pole cells have adopted a dorsal (horizontal) position at the posterior. Invagination of the anterior and posterior midgut and hindgut follows. The 'discoid plate' carrying the pole cells forms a pocket. Transverse furrows (dorsal folds) form on the dorsal surface. This stage ends when the anterior wall of the amnioproctodeal invagination starts moving anteriorly and the pole cells are no longer visible externally. Duration at 25 degrees C: approximately 10 minutes (180-190 minutes after egg laying).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005319
in subset: deprecated
comment: DEPRECATION WARNING.

Axiom
annotated source: stage 7 embryo
annotated property: definition
annotated target: Stage 7 begins when the pole cells have adopted a dorsal (horizontal) position at the posterior. Invagination of the anterior and posterior midgut and hindgut follows. The 'discoid plate' carrying the pole cells forms a pocket. Transverse furrows (dorsal folds) form on the dorsal surface. This stage ends when the anterior wall of the amnioproctodeal invagination starts moving anteriorly and the pole cells are no longer visible externally. Duration at 25 degrees C: approximately 10 minutes (180-190 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: https://orcid.org/0000-0002-7073-9172

extended germ band embryo
type: Class
subclass of: embryo
subclass of: Restriction
  on property: develops from
  some values from: gastrula embryo
definition: Embryo during stages 9-12.
database_cross_reference: FBdv:00005321
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005321

Axiom
annotated source: extended germ band embryo
annotated property: definition
annotated target: Embryo during stages 9-12.
database_cross_reference: FlyBase:FBrf0229323
database_cross_reference: https://orcid.org/0000-0002-7073-9172

stage 8 embryo
type: Class
subclass of: gastrula embryo
subclass of: Restriction
  on property: develops from
  some values from: stage 7 embryo
definition: Stage 8 starts with the rapid phase of germ band extension and ends with the beginning of mesodermal segmentation. By the end of this stage germ band extension has progressed to the point where the proctodeal opening is at about 60% egg length and the dorsal folds (transverse furrows) are no longer visible. Duration at 25 degrees C: approximately 30 minutes (190-220 minutes after egg laying).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005322
in subset: deprecated
comment: DEPRECATION WARNING.

Axiom
annotated source: stage 8 embryo
annotated property: definition
annotated target: Stage 8 starts with the rapid phase of germ band extension and ends with the beginning of mesodermal segmentation. By the end of this stage germ band extension has progressed to the point where the proctodeal opening is at about 60% egg length and the dorsal folds (transverse furrows) are no longer visible. Duration at 25 degrees C: approximately 30 minutes (190-220 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: https://orcid.org/0000-0002-7073-9172

dorsal closure embryo
type: Class
subclass of: embryo
subclass of: Restriction
  on property: develops from
  some values from: late extended germ band embryo
definition: Embryo during the dorsal closure stage, which corresponds to stages 13-15 (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997). Dorsal closure occurs by extension of the dorsal epidermal primordium on either side, leading to fusion at the dorsal midline (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FBdv:00005331
has OBO namespace: fly_anatomy.ontology
has related synonym: contracted germ band embryo
has related synonym: head involution embryo
id: FBbt:00005331

Axiom
annotated source: dorsal closure embryo
annotated property: definition
annotated target: Embryo during the dorsal closure stage, which corresponds to stages 13-15 (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997). Dorsal closure occurs by extension of the dorsal epidermal primordium on either side, leading to fusion at the dorsal midline (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0064803
database_cross_reference: FlyBase:FBrf0089570

late embryo
type: Class
subclass of: embryo
subclass of: Restriction
  on property: develops from
  some values from: dorsal closure embryo
definition: Embryo during stages 16 and 17.
database_cross_reference: FBdv:00005333
database_cross_reference: UBERON:0000323
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005333

Axiom
annotated source: late embryo
annotated property: definition
annotated target: Embryo during stages 16 and 17.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

foregut
type: Class
subclass of: multi-tissue structure
subclass of: gut section
definition: An anterior part of the alimentary canal derived from the ectoderm. It is lined on its luminal side by a impermeable cuticle. The proventriculus (cardia) is located at the junction between the foregut and midgut.
database_cross_reference: UBERON:0001041
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005379
in subset: FB gloss
in subset: cur

Axiom
annotated source: foregut
annotated property: definition
annotated target: An anterior part of the alimentary canal derived from the ectoderm. It is lined on its luminal side by a impermeable cuticle. The proventriculus (cardia) is located at the junction between the foregut and midgut.
database_cross_reference: FBC:GG

salivary gland
type: Class
subclass of: gland
subclass of: Restriction
  on property: part of
  some values from: foregut
subclass of: Restriction
  on property: capable of
  some values from: GO_0046541
definition: Paired secretory organ connected to the atrium via the salivary duct. It is essentially composed of two cell types: cuboidal epithelial duct cells that form tubes connecting the secretory cells to the larval mouth; and secretory cells that synthesize and secrete high levels of protein (Andrew et al., 2000).
database_cross_reference: UBERON:0001044
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005382
in subset: cur

Axiom
annotated source: salivary gland
annotated property: definition
annotated target: Paired secretory organ connected to the atrium via the salivary duct. It is essentially composed of two cell types: cuboidal epithelial duct cells that form tubes connecting the secretory cells to the larval mouth; and secretory cells that synthesize and secrete high levels of protein (Andrew et al., 2000).
database_cross_reference: FlyBase:FBrf0064792
database_cross_reference: FlyBase:FBrf0126988

midgut
type: Class
subclass of: multi-tissue structure
subclass of: gut section
definition: The part of the alimentary canal extending posteriorly from the proventriculus to close to the point where the Malpighian tubes are attached and where the hindgut starts. It is predominantly derived from the endoderm and it is lined by the peritrophic membrane.
database_cross_reference: UBERON:0001045
has exact synonym: ventriculus
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005383
in subset: FB gloss
in subset: cur

Axiom
annotated source: midgut
annotated property: definition
annotated target: The part of the alimentary canal extending posteriorly from the proventriculus to close to the point where the Malpighian tubes are attached and where the hindgut starts. It is predominantly derived from the endoderm and it is lined by the peritrophic membrane.
database_cross_reference: FBC:GG
database_cross_reference: FlyBase:FBrf0064792
database_cross_reference: FlyBase:FBrf0166419

Axiom
annotated source: midgut
annotated property: hasExactSynonym
annotated target: ventriculus
database_cross_reference: FlyBase:FBrf0007732

hindgut
type: Class
subclass of: multi-tissue structure
subclass of: gut section
subclass of: Restriction
  on property: expresses
  some values from: FBgn0011723
definition: A posterior part of the alimentary canal derived from the ectoderm. It extends anteriorly from close to the point of attachment of the Malpighian tubules to the anus. It is lined on its luminal side by an impermeable cuticle (Skaer, 1993).
database_cross_reference: UBERON:0001046
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005384
in subset: FB gloss
in subset: cur
comment: Adult and larval hindguts express the transcription factor brachyenteron (Sawyer et al., 2017).

Axiom
annotated source: hindgut
annotated property: definition
annotated target: A posterior part of the alimentary canal derived from the ectoderm. It extends anteriorly from close to the point of attachment of the Malpighian tubules to the anus. It is lined on its luminal side by an impermeable cuticle (Skaer, 1993).
database_cross_reference: FBC:GG
database_cross_reference: FlyBase:FBrf0064792

embryonic nervous system of abdomen
type: Class
subclass of: tagmatic subdivision of organ system
subclass of: Restriction
  on property: part of
  some values from: embryonic abdomen
subclass of: Restriction
  on property: part of
  some values from: presumptive embryonic/larval nervous system
definition: The portion of the embryonic nervous system that is part of the abdomen.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005388
in subset: cur

Axiom
annotated source: embryonic nervous system of abdomen
annotated property: definition
annotated target: The portion of the embryonic nervous system that is part of the abdomen.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

presumptive embryonic/larval integumentary system
type: Class
subclass of: presumptive embryonic/larval system
definition: The sum of all the structures in the embryo that will develop into the embryonic/larval integumentary system.
has OBO namespace: fly_anatomy.ontology
has related synonym: embryonic integumentary system
id: FBbt:00005392
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: presumptive embryonic/larval integumentary system
annotated property: definition
annotated target: The sum of all the structures in the embryo that will develop into the embryonic/larval integumentary system.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

Axiom
annotated source: presumptive embryonic/larval integumentary system
annotated property: hasRelatedSynonym
annotated target: embryonic integumentary system
database_cross_reference: https://orcid.org/0000-0002-7073-9172

larval integumentary system
type: Class
equivalent class: Class
  intersection of: integumentary system
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: integumentary system
subclass of: Restriction
  on property: part of
  some values from: larva
definition: Integumentary system of the late embryo or larva.
database_cross_reference: UBERON:6005393
has exact synonym: embryonic/larval integumentary system
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005393
in subset: cur

Axiom
annotated source: larval integumentary system
annotated property: definition
annotated target: Integumentary system of the late embryo or larva.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

adult integumentary system
type: Class
equivalent class: Class
  intersection of: integumentary system
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: integumentary system
subclass of: Restriction
  on property: part of
  some values from: adult
definition: Integumentary system of the adult.
has alternative id: FBbt:00004474
database_cross_reference: UBERON:6005396
has exact synonym: adult integument
has OBO namespace: fly_anatomy.ontology
has related synonym: adult external
id: FBbt:00005396
in subset: cur

Axiom
annotated source: adult integumentary system
annotated property: definition
annotated target: Integumentary system of the adult.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

embryonic epidermis
type: Class
subclass of: epidermis
subclass of: Restriction
  on property: part of
  some values from: presumptive embryonic/larval integumentary system
definition: Epidermis of the embryo.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005397
in subset: cur

Axiom
annotated source: embryonic epidermis
annotated property: definition
annotated target: Epidermis of the embryo.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

embryonic/larval epidermis
type: Class
subclass of: epidermis
subclass of: Restriction
  on property: part of
  some values from: larval integumentary system
subclass of: Restriction
  on property: develops from
  some values from: embryonic epidermis
definition: Epidermis of the late embryo or larva.
has exact synonym: larval epidermis
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005398
in subset: cur

Axiom
annotated source: embryonic/larval epidermis
annotated property: definition
annotated target: Epidermis of the late embryo or larva.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

adult epidermis
type: Class
subclass of: epidermis
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: adult integumentary system
subclass of: Restriction
  on property: develops from
  some values from: imaginal disc
definition: Epidermis of the adult.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005401
in subset: cur

Axiom
annotated source: adult epidermis
annotated property: definition
annotated target: Epidermis of the adult.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

anlage in statu nascendi
type: Class
subclass of: developing embryonic structure
definition: Domain that is in the process of forming an anlage and does not yet coincide 1:1 with a mature structure. These domains can be identified based on the expression of genes characteristic of the corresponding anlagen and are typically found in the early blastoderm.
has OBO namespace: fly_anatomy.ontology
has related synonym: A0
id: FBbt:00005413
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: anlage in statu nascendi
annotated property: definition
annotated target: Domain that is in the process of forming an anlage and does not yet coincide 1:1 with a mature structure. These domains can be identified based on the expression of genes characteristic of the corresponding anlagen and are typically found in the early blastoderm.
database_cross_reference: FlyBase:FBrf0155831
database_cross_reference: FlyBase:FBrf0178740

amnioserosa anlage in statu nascendi
type: Class
subclass of: anlage in statu nascendi
subclass of: Restriction
  on property: part of
  some values from: stage 5 embryo
definition: Anlage in statu nascendi of the amnioserosa in a stage 5 embryo that will give rise to the amnioserosa anlage.
has exact synonym: Asn amnioser
has OBO namespace: fly_anatomy.ontology
has related synonym: A0amnioser
id: FBbt:00005422
in subset: cur

Axiom
annotated source: amnioserosa anlage in statu nascendi
annotated property: definition
annotated target: Anlage in statu nascendi of the amnioserosa in a stage 5 embryo that will give rise to the amnioserosa anlage.
database_cross_reference: FBC:VH

Axiom
annotated source: amnioserosa anlage in statu nascendi
annotated property: hasExactSynonym
annotated target: Asn amnioser
database_cross_reference: https://orcid.org/0000-0001-5948-3092

Axiom
annotated source: amnioserosa anlage in statu nascendi
annotated property: hasRelatedSynonym
annotated target: A0amnioser
database_cross_reference: https://orcid.org/0000-0002-7073-9172

foregut anlage in statu nascendi
type: Class
subclass of: developing embryonic structure
subclass of: Restriction
  on property: part of
  some values from: stage 5 embryo
subclass of: Restriction
  on property: part of
  some values from: anterior ectoderm anlage
definition: Anlage in statu nascendi of the foregut in a stage 5 embryo that will give rise to the foregut anlage.
has exact synonym: Asn FoG
has OBO namespace: fly_anatomy.ontology
has related synonym: A0FoG
id: FBbt:00005423
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: foregut anlage in statu nascendi
annotated property: definition
annotated target: Anlage in statu nascendi of the foregut in a stage 5 embryo that will give rise to the foregut anlage.
database_cross_reference: FBC:VH

Axiom
annotated source: foregut anlage in statu nascendi
annotated property: hasExactSynonym
annotated target: Asn FoG
database_cross_reference: https://orcid.org/0000-0002-7073-9172

hindgut anlage in statu nascendi
type: Class
subclass of: anlage in statu nascendi
subclass of: Restriction
  on property: part of
  some values from: stage 5 embryo
definition: Anlage in statu nascendi of the hindgut in a stage 5 embryo that will give rise to the hindgut anlage.
has exact synonym: Asn iHiGP
has OBO namespace: fly_anatomy.ontology
has related synonym: A0HiGP
id: FBbt:00005424
in subset: cur

Axiom
annotated source: hindgut anlage in statu nascendi
annotated property: definition
annotated target: Anlage in statu nascendi of the hindgut in a stage 5 embryo that will give rise to the hindgut anlage.
database_cross_reference: FBC:VH

Axiom
annotated source: hindgut anlage in statu nascendi
annotated property: hasExactSynonym
annotated target: Asn iHiGP
database_cross_reference: https://orcid.org/0000-0001-5948-3092

anlage
type: Class
subclass of: portion of tissue
subclass of: developing material anatomical entity
definition: Population of contiguous cells, typically arranged in one plane, that is morphologically indistinct from surrounding cells, but already corresponds to a later organ/tissue and can be identified based on gene expression or lineage tracing (Tomancak et al., 2002; Hartenstein, 2004).
database_cross_reference: UBERON:0007688
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005426
in subset: EmbDevSlim
in subset: FB gloss
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: anlage
annotated property: definition
annotated target: Population of contiguous cells, typically arranged in one plane, that is morphologically indistinct from surrounding cells, but already corresponds to a later organ/tissue and can be identified based on gene expression or lineage tracing (Tomancak et al., 2002; Hartenstein, 2004).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0155831
database_cross_reference: FlyBase:FBrf0178740

ectoderm anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: Restriction
  on property: develops into
  some values from: ectoderm
definition: Cells of the early embryo that will become the ectoderm following gastrulation (Campos-Ortega and Hartenstein, 1997). It remains at the surface of the embryo as the endodermal and mesodermal anlagen invaginate (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: UBERON:6005427
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005427
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: ectoderm anlage
annotated property: definition
annotated target: Cells of the early embryo that will become the ectoderm following gastrulation (Campos-Ortega and Hartenstein, 1997). It remains at the surface of the embryo as the endodermal and mesodermal anlagen invaginate (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0155831
database_cross_reference: FlyBase:FBrf0244630

dorsal ectoderm anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: Restriction
  on property: part of
  some values from: ectoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: dorsal ectoderm
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005428
in subset: cur

foregut anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: Restriction
  on property: part of
  some values from: anterior ectoderm
subclass of: Restriction
  on property: develops from
  some values from: foregut anlage in statu nascendi
subclass of: Restriction
  on property: develops into
  some values from: embryonic foregut
definition: Anlage of the embryonic foregut.
has OBO namespace: fly_anatomy.ontology
has related synonym: AFoG
id: FBbt:00005431
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: foregut anlage
annotated property: definition
annotated target: Anlage of the embryonic foregut.
database_cross_reference: FBC:VH

endoderm anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: Restriction
  on property: develops into
  some values from: endoderm
definition: Contiguous region of early embryonic cells that will invaginate during gastrulation to form a region of the endoderm (Campos-Ortega and Hartenstein, 1997).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005435
in subset: cur

Axiom
annotated source: endoderm anlage
annotated property: definition
annotated target: Contiguous region of early embryonic cells that will invaginate during gastrulation to form a region of the endoderm (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0155831

trunk mesoderm anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: Restriction
  on property: part of
  some values from: mesoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: trunk mesoderm
definition: A(n) anlage that develops into some trunk mesoderm.
has OBO namespace: fly_anatomy.ontology
has related synonym: Asn/A TrMes
id: FBbt:00005436
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: trunk mesoderm anlage
annotated property: definition
annotated target: A(n) anlage that develops into some trunk mesoderm.
database_cross_reference: FBC:Autogenerated

Axiom
annotated source: trunk mesoderm anlage
annotated property: hasRelatedSynonym
annotated target: Asn/A TrMes
database_cross_reference: https://orcid.org/0000-0002-7073-9172

circulatory system primordium
type: Class
equivalent class: Class
  intersection of: primordium
  intersection of: Restriction
    on property: develops into
    some values from: Class
      intersection of: anatomical entity
      intersection of: Restriction
        on property: part of
        some values from: circulatory system
subclass of: primordium
subclass of: Restriction
  on property: develops into
  some values from: Class
    intersection of: anatomical entity
    intersection of: Restriction
      on property: part of
      some values from: circulatory system
definition: Any primordium (FBbt:00005495) that develops into is part of some anatomical entity (FBbt:10000000) that is part of some circulatory system (FBbt:00005057).
database_cross_reference: UBERON:6005461
has OBO namespace: fly_anatomy.ontology
has related synonym: embryonic/larval circulatory system specific anlage
id: FBbt:00005461
in subset: cur

Axiom
annotated source: circulatory system primordium
annotated property: definition
annotated target: Any primordium (FBbt:00005495) that develops into is part of some anatomical entity (FBbt:10000000) that is part of some circulatory system (FBbt:00005057).
database_cross_reference: FBC:Autogenerated

primordium
type: Class
subclass of: developing material anatomical entity
subclass of: Restriction
  on property: develops from
  some values from: anlage
definition: Precursor structure that can be recognized based on its distinct morphology and will give rise to one or more differentiated structures (Tomancak et al., 2002; Hartenstein, 2004). It develops from an anlage and may contain smaller anlage and primordia that will produce substructures (Tomancak et al., 2002).
database_cross_reference: UBERON:0001048
has OBO namespace: fly_anatomy.ontology
has related synonym: P
has related synonym: placode
id: FBbt:00005495
in subset: EmbDevSlim
in subset: FB gloss
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: primordium
annotated property: definition
annotated target: Precursor structure that can be recognized based on its distinct morphology and will give rise to one or more differentiated structures (Tomancak et al., 2002; Hartenstein, 2004). It develops from an anlage and may contain smaller anlage and primordia that will produce substructures (Tomancak et al., 2002).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0155831
database_cross_reference: FlyBase:FBrf0178740

Malpighian tubule main body primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: posterior ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: late extended germ band embryo
subclass of: Restriction
  on property: part of
  some values from: dorsal closure embryo
subclass of: Restriction
  on property: develops from
  some values from: Malpighian tubule primordium
subclass of: Restriction
  on property: develops into
  some values from: embryonic posterior Malpighian tubule
definition: A(n) primordium that develops into some embryonic posterior Malpighian tubule. It develops from some Malpighian tubule primordium.
has OBO namespace: fly_anatomy.ontology
has related synonym: P1 MalTB
id: FBbt:00005501
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: Malpighian tubule main body primordium
annotated property: definition
annotated target: A(n) primordium that develops into some embryonic posterior Malpighian tubule. It develops from some Malpighian tubule primordium.
database_cross_reference: FBC:Autogenerated

Axiom
annotated source: Malpighian tubule main body primordium
annotated property: hasRelatedSynonym
annotated target: P1 MalTB
database_cross_reference: https://orcid.org/0000-0002-7073-9172

Malpighian tubule tip cell primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: posterior ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: late extended germ band embryo
subclass of: Restriction
  on property: part of
  some values from: dorsal closure embryo
subclass of: Restriction
  on property: develops from
  some values from: Malpighian tubule primordium
subclass of: Restriction
  on property: develops into
  some values from: embryonic Malpighian tubule tip cell
definition: A(n) primordium that develops into some embryonic Malpighian tubule tip cell. It develops from some Malpighian tubule primordium.
has OBO namespace: fly_anatomy.ontology
has related synonym: Malpighian tubule tip cell specific anlage
has related synonym: P1 MalTT
id: FBbt:00005502
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: Malpighian tubule tip cell primordium
annotated property: definition
annotated target: A(n) primordium that develops into some embryonic Malpighian tubule tip cell. It develops from some Malpighian tubule primordium.
database_cross_reference: FBC:Autogenerated

Axiom
annotated source: Malpighian tubule tip cell primordium
annotated property: hasRelatedSynonym
annotated target: P1 MalTT
database_cross_reference: https://orcid.org/0000-0002-7073-9172

small intestine primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: posterior ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: late extended germ band embryo
subclass of: Restriction
  on property: part of
  some values from: dorsal closure embryo
subclass of: Restriction
  on property: develops from
  some values from: hindgut proper primordium
subclass of: Restriction
  on property: develops into
  some values from: embryonic small intestine
definition: A(n) primordium that develops into some embryonic small intestine. It develops from some hindgut proper primordium.
has OBO namespace: fly_anatomy.ontology
has related synonym: P1 SmInt
has related synonym: small intestine specific anlage
id: FBbt:00005504
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: small intestine primordium
annotated property: definition
annotated target: A(n) primordium that develops into some embryonic small intestine. It develops from some hindgut proper primordium.
database_cross_reference: FBC:Autogenerated

Axiom
annotated source: small intestine primordium
annotated property: hasRelatedSynonym
annotated target: P1 SmInt
database_cross_reference: https://orcid.org/0000-0002-7073-9172

large intestine primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: posterior ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: late extended germ band embryo
subclass of: Restriction
  on property: part of
  some values from: dorsal closure embryo
subclass of: Restriction
  on property: develops from
  some values from: hindgut proper primordium
subclass of: Restriction
  on property: develops into
  some values from: embryonic large intestine
definition: A(n) primordium that develops into some embryonic large intestine. It develops from some hindgut proper primordium.
has OBO namespace: fly_anatomy.ontology
has related synonym: P1 LaInt
has related synonym: large intestine specific anlage
id: FBbt:00005505
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: large intestine primordium
annotated property: definition
annotated target: A(n) primordium that develops into some embryonic large intestine. It develops from some hindgut proper primordium.
database_cross_reference: FBC:Autogenerated

Axiom
annotated source: large intestine primordium
annotated property: hasRelatedSynonym
annotated target: P1 LaInt
database_cross_reference: https://orcid.org/0000-0002-7073-9172

rectum primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: posterior ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: late extended germ band embryo
subclass of: Restriction
  on property: part of
  some values from: dorsal closure embryo
subclass of: Restriction
  on property: develops from
  some values from: hindgut proper primordium
subclass of: Restriction
  on property: develops into
  some values from: embryonic/larval rectum
definition: A(n) primordium that develops into some embryonic/larval rectum. It develops from some hindgut proper primordium.
has OBO namespace: fly_anatomy.ontology
has related synonym: P1 Rect
has related synonym: rectum specific anlage
id: FBbt:00005506
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: rectum primordium
annotated property: definition
annotated target: A(n) primordium that develops into some embryonic/larval rectum. It develops from some hindgut proper primordium.
database_cross_reference: FBC:Autogenerated

Axiom
annotated source: rectum primordium
annotated property: hasRelatedSynonym
annotated target: P1 Rect
database_cross_reference: https://orcid.org/0000-0002-7073-9172

salivary gland body primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: extended germ band embryo
subclass of: Restriction
  on property: part of
  some values from: dorsal closure embryo
subclass of: Restriction
  on property: part of
  some values from: presumptive embryonic salivary gland
subclass of: Restriction
  on property: develops into
  some values from: embryonic/larval salivary gland body
definition: Primordium that will form the secretory body of the embryonic/larval salivary gland. This primordium is first apparent as two epidermal placodes on the medial surface of the labial buds during stage 11. These placodes invaginate during embryonic stage 11 to form simple tubes on each side of the embryo that are positioned approximately along the dorso-ventral axis. Once internalized, the primordia migrate posteriorly during embryonic stage 12. They fuse to the developing salivary gland common duct by stage 13 and shortly after begin to show signs of secretory activity.
has alternative id: FBbt:00005621
has exact synonym: P1 SalG
has OBO namespace: fly_anatomy.ontology
has related synonym: embryonic salivary gland
has related synonym: salivary gland body specific anlage
id: FBbt:00005512
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: salivary gland body primordium
annotated property: definition
annotated target: Primordium that will form the secretory body of the embryonic/larval salivary gland. This primordium is first apparent as two epidermal placodes on the medial surface of the labial buds during stage 11. These placodes invaginate during embryonic stage 11 to form simple tubes on each side of the embryo that are positioned approximately along the dorso-ventral axis. Once internalized, the primordia migrate posteriorly during embryonic stage 12. They fuse to the developing salivary gland common duct by stage 13 and shortly after begin to show signs of secretory activity.
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0126988
database_cross_reference: FlyBase:FBrf0159337

Axiom
annotated source: salivary gland body primordium
annotated property: hasExactSynonym
annotated target: P1 SalG
database_cross_reference: https://orcid.org/0000-0002-7073-9172

embryonic primordium of adult hindgut precursor
type: Class
subclass of: embryonic imaginal tissue
subclass of: primordium
subclass of: posterior ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: late extended germ band embryo
subclass of: Restriction
  on property: part of
  some values from: dorsal closure embryo
subclass of: Restriction
  on property: develops from
  some values from: hindgut proper primordium
subclass of: Restriction
  on property: develops into
  some values from: embryonic precursor of adult hindgut
definition: Primordium of the late extended germ band embryo that will give rise to the embryonic precursor of the adult hindgut.
has exact synonym: adult hindgut precursor primordium
has exact synonym: adult hindgut primordium
has OBO namespace: fly_anatomy.ontology
has related synonym: P1 AdHi
has related synonym: adult hindgut specific anlage
id: FBbt:00005513
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic primordium of adult hindgut precursor
annotated property: definition
annotated target: Primordium of the late extended germ band embryo that will give rise to the embryonic precursor of the adult hindgut.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

Axiom
annotated source: embryonic primordium of adult hindgut precursor
annotated property: hasRelatedSynonym
annotated target: P1 AdHi
database_cross_reference: https://orcid.org/0000-0002-7073-9172

somatic muscle primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: somatic trunk mesoderm derivative
subclass of: Restriction
  on property: part of
  some values from: presumptive embryonic/larval muscle system
subclass of: Restriction
  on property: develops into
  some values from: larval somatic muscle
definition: Primordium of the larval segmentally-repeated body wall musculature. It arises from the outer layer of the trunk mesoderm. During germ band shortening (stage 13), it segregates into loose segmental clusters. Within these clusters, muscle formation proceeds by fusion of fusion competent myoblasts to muscle founder cells. Formation of the embryonic/larval somatic musculature is complete by stage 17.
has OBO namespace: fly_anatomy.ontology
has related synonym: P1 SoMus
has related synonym: SoMusP2
has related synonym: somatic muscle specific anlage
id: FBbt:00005518
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: somatic muscle primordium
annotated property: definition
annotated target: Primordium of the larval segmentally-repeated body wall musculature. It arises from the outer layer of the trunk mesoderm. During germ band shortening (stage 13), it segregates into loose segmental clusters. Within these clusters, muscle formation proceeds by fusion of fusion competent myoblasts to muscle founder cells. Formation of the embryonic/larval somatic musculature is complete by stage 17.
database_cross_reference: FlyBase:FBrf0064793
database_cross_reference: FlyBase:FBrf0064803
database_cross_reference: FlyBase:FBrf0089570

Axiom
annotated source: somatic muscle primordium
annotated property: hasRelatedSynonym
annotated target: P1 SoMus
database_cross_reference: https://orcid.org/0000-0002-7073-9172

inclusive hindgut primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: Class
  intersection of: Restriction
    on property: develops into
    some values from: hindgut proper primordium
  intersection of: Restriction
    on property: develops into
    some values from: Malpighian tubule primordium
subclass of: Restriction
  on property: part of
  some values from: posterior ectoderm
subclass of: Restriction
  on property: part of
  some values from: amnioproctodeal invagination
subclass of: Restriction
  on property: develops from
  some values from: hindgut anlage
definition: A(n) primordium that develops into some hindgut proper primordium and some Malpighian tubule primordium. It develops from some hindgut anlage.
has OBO namespace: fly_anatomy.ontology
has related synonym: iHiGP2
id: FBbt:00005523
in subset: cur

Axiom
annotated source: inclusive hindgut primordium
annotated property: definition
annotated target: A(n) primordium that develops into some hindgut proper primordium and some Malpighian tubule primordium. It develops from some hindgut anlage.
database_cross_reference: FBC:Autogenerated

Axiom
annotated source: inclusive hindgut primordium
annotated property: hasRelatedSynonym
annotated target: iHiGP2
database_cross_reference: https://orcid.org/0000-0002-7073-9172

midline primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: mesectodermal derivative
subclass of: Restriction
  on property: part of
  some values from: presumptive embryonic/larval nervous system
subclass of: Restriction
  on property: overlaps
  some values from: midline
definition: Region of the developing embryonic central nervous system that is derived from the mesectoderm and found at the midline (Kearney et al., 2004). The mesectodermal cells have undergone further cell division and differentiation and a metameric organization is now more apparent (Kearney et al., 2004).
has narrow synonym: embryonic mature midline
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005528
in subset: cur
comment: Kearney et al. (2004) refer to this as 'mature midline' from stage 13, despite the presence of immature cells.

Axiom
annotated source: midline primordium
annotated property: definition
annotated target: Region of the developing embryonic central nervous system that is derived from the mesectoderm and found at the midline (Kearney et al., 2004). The mesectodermal cells have undergone further cell division and differentiation and a metameric organization is now more apparent (Kearney et al., 2004).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0180108
database_cross_reference: FlyBase:FBrf0195284

Axiom
annotated source: midline primordium
annotated property: hasNarrowSynonym
annotated target: embryonic mature midline
database_cross_reference: FlyBase:FBrf0180108

ventral epidermis primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: ventral ectoderm derivative
subclass of: Class
  intersection of: Restriction
    on property: develops into
    some values from: imaginal disc primordium
  intersection of: Restriction
    on property: develops into
    some values from: embryonic ventral epidermis
  intersection of: Restriction
    on property: develops into
    some values from: ventral trunk epidermis primordium
  intersection of: Restriction
    on property: develops into
    some values from: anal pad primordium
  intersection of: Restriction
    on property: develops into
    some values from: ventral apodeme anlage
  intersection of: Restriction
    on property: develops into
    some values from: denticle field anlage
subclass of: Restriction
  on property: part of
  some values from: early extended germ band embryo
subclass of: Restriction
  on property: develops from
  some values from: ventral neurectoderm
definition: A(n) primordium that develops into some denticle field anlage and some anal pad primordium and some embryonic ventral epidermis and some imaginal disc primordium and some ventral apodeme anlage and some ventral trunk epidermis primordium. It develops from some ventral neurectoderm.
database_cross_reference: UBERON:6005533
has OBO namespace: fly_anatomy.ontology
has related synonym: P2 iVenEp
has related synonym: venEpiP2
id: FBbt:00005533
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: ventral epidermis primordium
annotated property: definition
annotated target: A(n) primordium that develops into some denticle field anlage and some anal pad primordium and some embryonic ventral epidermis and some imaginal disc primordium and some ventral apodeme anlage and some ventral trunk epidermis primordium. It develops from some ventral neurectoderm.
database_cross_reference: FBC:Autogenerated

Axiom
annotated source: ventral epidermis primordium
annotated property: hasRelatedSynonym
annotated target: P2 iVenEp
database_cross_reference: https://orcid.org/0000-0002-7073-9172

proventriculus primordium
type: Class
subclass of: primordium
subclass of: Restriction
  on property: develops into
  some values from: embryonic proventriculus
definition: A(n) primordium that develops into some embryonic proventriculus.
has OBO namespace: fly_anatomy.ontology
has related synonym: PvP3
id: FBbt:00005550
in subset: cur

Axiom
annotated source: proventriculus primordium
annotated property: definition
annotated target: A(n) primordium that develops into some embryonic proventriculus.
database_cross_reference: FBC:Autogenerated

ventral ectoderm
type: Class
subclass of: developing embryonic structure
subclass of: Restriction
  on property: part of
  some values from: trunk ectoderm
subclass of: Restriction
  on property: develops from
  some values from: ventral ectoderm anlage
definition: Ventral region of the trunk ectoderm, which gives rise to the ventral epidermis and the central nervous system (Stathopoulos and Newcomb, 2020).
database_cross_reference: UBERON:6005558
has exact synonym: neuroectoderm
has exact synonym: neurogenic ectoderm
has OBO namespace: fly_anatomy.ontology
has related synonym: P2 VenEc
has related synonym: venEc
id: FBbt:00005558
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: ventral ectoderm
annotated property: definition
annotated target: Ventral region of the trunk ectoderm, which gives rise to the ventral epidermis and the central nervous system (Stathopoulos and Newcomb, 2020).
database_cross_reference: FlyBase:FBrf0244630
database_cross_reference: FlyBase:FBrf0246683

Axiom
annotated source: ventral ectoderm
annotated property: hasExactSynonym
annotated target: neuroectoderm
database_cross_reference: FlyBase:FBrf0244630

Axiom
annotated source: ventral ectoderm
annotated property: hasExactSynonym
annotated target: neurogenic ectoderm
database_cross_reference: FlyBase:FBrf0246683

Axiom
annotated source: ventral ectoderm
annotated property: hasRelatedSynonym
annotated target: P2 VenEc
database_cross_reference: https://orcid.org/0000-0002-7073-9172

posterior endoderm
type: Class
subclass of: developing embryonic structure
subclass of: Restriction
  on property: part of
  some values from: endoderm
subclass of: Restriction
  on property: part of
  some values from: stage 7 embryo
subclass of: Restriction
  on property: part of
  some values from: stage 8 embryo
subclass of: Restriction
  on property: part of
  some values from: early extended germ band embryo
subclass of: Restriction
  on property: develops from
  some values from: posterior endoderm anlage
definition: The posterior part of the endoderm from its invagination as part of the amnioproctodeal invagination during stage 7, until it becomes morphologically distinct from the hindgut primordium due to a epithelial-to-mesenchymal transition at the end of stage 10 (Reuter et al., 1993). This epithelial-to-mesenchymal transition is also the transition from posterior endoderm to posterior midgut primordium.
has alternative id: FBbt:00005522
has alternative id: FBbt:00005525
has exact synonym: PMG
has exact synonym: posterior midgut rudiment
has OBO namespace: fly_anatomy.ontology
has related synonym: P2 postEndo
has related synonym: postEndo
has related synonym: postEndoP2
has related synonym: postMGRudP2
has related synonym: posterior endoderm primordium P2
has related synonym: posterior midgut primordium rudiment
id: FBbt:00005560
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: posterior endoderm
annotated property: definition
annotated target: The posterior part of the endoderm from its invagination as part of the amnioproctodeal invagination during stage 7, until it becomes morphologically distinct from the hindgut primordium due to a epithelial-to-mesenchymal transition at the end of stage 10 (Reuter et al., 1993). This epithelial-to-mesenchymal transition is also the transition from posterior endoderm to posterior midgut primordium.
database_cross_reference: FlyBase:FBrf0068651
database_cross_reference: FlyBase:FBrf0089570

Axiom
annotated source: posterior endoderm
annotated property: hasExactSynonym
annotated target: PMG
database_cross_reference: FlyBase:FBrf0064803

Axiom
annotated source: posterior endoderm
annotated property: hasRelatedSynonym
annotated target: P2 postEndo
database_cross_reference: https://orcid.org/0000-0002-7073-9172

presumptive embryonic/larval tracheal system
type: Class
subclass of: presumptive embryonic/larval system
definition: The sum of all the structures in the embryo that will develop into the embryonic/larval tracheal system. This corresponds to the tracheal primordia and their component tracheal branch primordia along with primordia of the spiracles.
database_cross_reference: UBERON:6005569
has OBO namespace: fly_anatomy.ontology
has related synonym: embryonic tracheal system
id: FBbt:00005569
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: presumptive embryonic/larval tracheal system
annotated property: definition
annotated target: The sum of all the structures in the embryo that will develop into the embryonic/larval tracheal system. This corresponds to the tracheal primordia and their component tracheal branch primordia along with primordia of the spiracles.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

Axiom
annotated source: presumptive embryonic/larval tracheal system
annotated property: hasRelatedSynonym
annotated target: embryonic tracheal system
database_cross_reference: https://orcid.org/0000-0002-7073-9172

embryonic foregut
type: Class
subclass of: foregut
subclass of: anterior ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: presumptive embryonic/larval digestive system
subclass of: Restriction
  on property: develops from
  some values from: foregut anlage
definition: Foregut of the embryo.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005606
in subset: cur

Axiom
annotated source: embryonic foregut
annotated property: definition
annotated target: Foregut of the embryo.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

embryonic proventriculus
type: Class
subclass of: proventriculus
subclass of: Restriction
  on property: part of
  some values from: presumptive embryonic/larval digestive system
subclass of: Restriction
  on property: overlaps
  some values from: embryonic/larval midgut
subclass of: Restriction
  on property: overlaps
  some values from: embryonic foregut
subclass of: Restriction
  on property: develops from
  some values from: proventriculus primordium
definition: Proventriculus of the embryo. It contains three distinct cell layers: inner, intermediate and outer. At the anterior end, corresponding to the most anterior region of the midgut, imaginal cells are found at the level of the intermediate layer.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005607
in subset: EmbDevSlim
in subset: cur
comment: This structure is more correctly referred to as the 'cardia'. Strictly, proventriculus refers to a modification of the foregut, just anterior to the stomodeal valve, found in many insects. Drosophila has no such foregut modification (Miller, 1950). However, the term 'proventriculus' is the one most commonly used for this structure.

Axiom
annotated source: embryonic proventriculus
annotated property: definition
annotated target: Proventriculus of the embryo. It contains three distinct cell layers: inner, intermediate and outer. At the anterior end, corresponding to the most anterior region of the midgut, imaginal cells are found at the level of the intermediate layer.
database_cross_reference: FlyBase:FBrf0064792

presumptive embryonic salivary gland
type: Class
subclass of: disconnected anatomical group
subclass of: Restriction
  on property: part of
  some values from: embryonic foregut
definition: The sum of the primordia in the embryo that will contribute to the embryonic/larval salivary gland.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005620
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: presumptive embryonic salivary gland
annotated property: definition
annotated target: The sum of the primordia in the embryo that will contribute to the embryonic/larval salivary gland.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

embryonic/larval midgut primordium
type: Class
subclass of: developing embryonic structure
subclass of: midgut primordium
subclass of: Restriction
  on property: part of
  some values from: presumptive embryonic/larval digestive system
definition: A primordium that is a progenitor of all or part of the embryonic/larval midgut.
has OBO namespace: fly_anatomy.ontology
has related synonym: embryonic midgut
id: FBbt:00005624
in subset: cur

Axiom
annotated source: embryonic/larval midgut primordium
annotated property: definition
annotated target: A primordium that is a progenitor of all or part of the embryonic/larval midgut.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

embryonic hindgut
type: Class
subclass of: hindgut
subclass of: Restriction
  on property: part of
  some values from: presumptive embryonic/larval digestive system
definition: Posterior region of the embryonic gut, posterior to the embryonic midgut. It is divided into 3 domains: small and large intestine and rectum. Border cells separate these three regions.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005630
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic hindgut
annotated property: definition
annotated target: Posterior region of the embryonic gut, posterior to the embryonic midgut. It is divided into 3 domains: small and large intestine and rectum. Border cells separate these three regions.
database_cross_reference: FlyBase:FBrf0134749

embryonic small intestine
type: Class
subclass of: posterior ectoderm derivative
subclass of: multicellular structure
subclass of: Restriction
  on property: part of
  some values from: embryonic hindgut
subclass of: Restriction
  on property: develops from
  some values from: small intestine primordium
definition: Anterior and small domain of the embryonic hindgut, posterior to the midgut.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005631
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic small intestine
annotated property: definition
annotated target: Anterior and small domain of the embryonic hindgut, posterior to the midgut.
database_cross_reference: FlyBase:FBrf0134749

embryonic large intestine
type: Class
subclass of: posterior ectoderm derivative
subclass of: multicellular structure
subclass of: Restriction
  on property: part of
  some values from: embryonic hindgut
subclass of: Restriction
  on property: develops from
  some values from: large intestine primordium
definition: Middle and long domain of the embryonic hindgut, posterior to the small intestine.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005632
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic large intestine
annotated property: definition
annotated target: Middle and long domain of the embryonic hindgut, posterior to the small intestine.
database_cross_reference: FlyBase:FBrf0134749

embryonic Malpighian tubule
type: Class
subclass of: Malpighian tubule
subclass of: Restriction
  on property: continuous with
  some values from: embryonic hindgut
definition: Malpighian tubule of the embryo. By mid-embryogenesis when cell division ceases, a phase of tubule elongation starts, and the number of cells surrounding the lumen decreases from 6 to 10 to only 2.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005634
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic Malpighian tubule
annotated property: definition
annotated target: Malpighian tubule of the embryo. By mid-embryogenesis when cell division ceases, a phase of tubule elongation starts, and the number of cells surrounding the lumen decreases from 6 to 10 to only 2.
database_cross_reference: FlyBase:FBrf0064792

embryonic posterior Malpighian tubule
type: Class
subclass of: embryonic Malpighian tubule
subclass of: posterior Malpighian tubule
subclass of: posterior ectoderm derivative
subclass of: Restriction
  on property: develops from
  some values from: Malpighian tubule main body primordium
definition: Posterior Malpighian tubule of the embryo.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005635
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic posterior Malpighian tubule
annotated property: definition
annotated target: Posterior Malpighian tubule of the embryo.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

embryonic specialized Malpighian tubule cell
type: Class
subclass of: specialized Malpighian tubule cell
subclass of: Restriction
  on property: part of
  some values from: embryonic Malpighian tubule
definition: Specialized cell of the embryonic Malpighian tubules.
has exact synonym: embryonic specialised Malpighian tubule cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005642
in subset: cur

Axiom
annotated source: embryonic specialized Malpighian tubule cell
annotated property: definition
annotated target: Specialized cell of the embryonic Malpighian tubules.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

embryonic Malpighian tubule tip cell
type: Class
subclass of: embryonic specialized Malpighian tubule cell
subclass of: Malpighian tubule tip cell
subclass of: posterior ectoderm derivative
subclass of: Restriction
  on property: develops from
  some values from: Malpighian tubule tip cell primordium
definition: Tip cell of the embryonic Malpighian tubule. It persists throughout tubule elongation during stages 13-16 and contacts a specific target by the end of the process (Weavers and Skaer, 2013). It adopts a specialized morphology with the cell body projecting from the tubule tip on the end of a microtubule-enriched stalk (Weavers and Skaer, 2013). It can extend filopodia and lamellipodia to explore its environment and remains free of basement membrane (Weavers and Skaer, 2013).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005643
in subset: cur

Axiom
annotated source: embryonic Malpighian tubule tip cell
annotated property: definition
annotated target: Tip cell of the embryonic Malpighian tubule. It persists throughout tubule elongation during stages 13-16 and contacts a specific target by the end of the process (Weavers and Skaer, 2013). It adopts a specialized morphology with the cell body projecting from the tubule tip on the end of a microtubule-enriched stalk (Weavers and Skaer, 2013). It can extend filopodia and lamellipodia to explore its environment and remains free of basement membrane (Weavers and Skaer, 2013).
database_cross_reference: FlyBase:FBrf0223292

embryonic precursor of adult hindgut
type: Class
subclass of: developing embryonic structure
subclass of: somatic precursor cell
subclass of: posterior ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: embryonic hindgut
subclass of: Restriction
  on property: overlaps
  some values from: larval hindgut imaginal ring
subclass of: Restriction
  on property: overlaps
  some values from: anal imaginal ring
subclass of: Restriction
  on property: develops from
  some values from: embryonic primordium of adult hindgut precursor
definition: Imaginal cell, set aside during embryonic development, that will give rise to the adult hindgut. These cells are found in two rings of the hindgut; immediately posterior to the ureters of the Malpighian tubules, and at the anus. These two rings grow out and eventually unite.
has exact synonym: adult hindgut precursor
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005646
in subset: cur

Axiom
annotated source: embryonic precursor of adult hindgut
annotated property: definition
annotated target: Imaginal cell, set aside during embryonic development, that will give rise to the adult hindgut. These cells are found in two rings of the hindgut; immediately posterior to the ureters of the Malpighian tubules, and at the anus. These two rings grow out and eventually unite.
database_cross_reference: FlyBase:FBrf0064792

presumptive embryonic/larval muscle system
type: Class
subclass of: presumptive embryonic/larval system
definition: The sum of all the structures in the embryo that will develop into the embryonic/larval muscle system.
has OBO namespace: fly_anatomy.ontology
has related synonym: embryonic muscle system
id: FBbt:00005647
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: presumptive embryonic/larval muscle system
annotated property: definition
annotated target: The sum of all the structures in the embryo that will develop into the embryonic/larval muscle system.
database_cross_reference: FlyBase:FBrf0031016
database_cross_reference: FlyBase:FBrf0041814
database_cross_reference: FlyBase:FBrf0044229
database_cross_reference: FlyBase:FBrf0064793

Axiom
annotated source: presumptive embryonic/larval muscle system
annotated property: hasRelatedSynonym
annotated target: embryonic muscle system
database_cross_reference: https://orcid.org/0000-0002-7073-9172

embryonic somatic muscle cell
type: Class
equivalent class: Class
  intersection of: muscle cell
  intersection of: Restriction
    on property: part of
    some values from: embryonic somatic muscle
subclass of: somatic muscle cell
subclass of: Restriction
  on property: part of
  some values from: embryonic somatic muscle
subclass of: Restriction
  on property: develops from
  some values from: myoblast
definition: Any muscle cell (FBbt:00005074) that is part of some embryonic somatic muscle (FBbt:00059033).
has exact synonym: embryonic skeletal muscle cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005649
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic somatic muscle cell
annotated property: definition
annotated target: Any muscle cell (FBbt:00005074) that is part of some embryonic somatic muscle (FBbt:00059033).
database_cross_reference: FBC:Autogenerated

larval excretory system
type: Class
equivalent class: Class
  intersection of: excretory system
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: excretory system
subclass of: Restriction
  on property: part of
  some values from: larva
definition: Excretory system of the late embryo or larva.
has exact synonym: embryonic/larval excretory system
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005718
in subset: cur

Axiom
annotated source: larval excretory system
annotated property: definition
annotated target: Excretory system of the late embryo or larva.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

adult excretory system
type: Class
equivalent class: Class
  intersection of: excretory system
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: excretory system
subclass of: Restriction
  on property: part of
  some values from: adult
definition: Any excretory system of the adult.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005724
in subset: cur

Axiom
annotated source: adult excretory system
annotated property: definition
annotated target: Any excretory system of the adult.
database_cross_reference: FBC:Autogenerated

adult Malpighian tubule
type: Class
subclass of: Malpighian tubule
subclass of: Restriction
  on property: part of
  some values from: adult excretory system
subclass of: Restriction
  on property: continuous with
  some values from: adult hindgut
definition: Malpighian tubule of the adult. It is very similar to that of the larva, except that the initial segment of the anterior tubule is much smaller in the adult.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005725
in subset: cur

Axiom
annotated source: adult Malpighian tubule
annotated property: definition
annotated target: Malpighian tubule of the adult. It is very similar to that of the larva, except that the initial segment of the anterior tubule is much smaller in the adult.
database_cross_reference: FlyBase:FBrf0222532

adult specialized Malpighian tubule cell
type: Class
equivalent class: Class
  intersection of: specialized Malpighian tubule cell
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: specialized Malpighian tubule cell
subclass of: Restriction
  on property: part of
  some values from: adult Malpighian tubule
definition: Specialized cell of the adult Malpighian tubules.
has exact synonym: adult specialised Malpighian tubule cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005733
in subset: cur

Axiom
annotated source: adult specialized Malpighian tubule cell
annotated property: definition
annotated target: Specialized cell of the adult Malpighian tubules.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

adult Malpighian tubule tip cell
type: Class
equivalent class: Class
  intersection of: Malpighian tubule tip cell
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: adult specialized Malpighian tubule cell
subclass of: Malpighian tubule tip cell
definition: Tip cell of the adult Malpighian tubule. The tip cell of the adult anterior tubules makes contact with alary muscles of the heart, whereas the tip cell of the posterior tubules contacts the a9 hindgut visceral nerve on the surface of the hindgut.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005734
in subset: cur

Axiom
annotated source: adult Malpighian tubule tip cell
annotated property: definition
annotated target: Tip cell of the adult Malpighian tubule. The tip cell of the adult anterior tubules makes contact with alary muscles of the heart, whereas the tip cell of the posterior tubules contacts the a9 hindgut visceral nerve on the surface of the hindgut.
database_cross_reference: FlyBase:FBrf0222532
database_cross_reference: FlyBase:FBrf0223292

embryonic ventral epidermis
type: Class
subclass of: ventral ectoderm derivative
subclass of: multicellular structure
subclass of: Restriction
  on property: part of
  some values from: embryonic epidermis
subclass of: Restriction
  on property: develops from
  some values from: ventral epidermis primordium
definition: Epidermis of the ventral region of the embryo.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005747
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic ventral epidermis
annotated property: definition
annotated target: Epidermis of the ventral region of the embryo.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

embryonic anal pad
type: Class
subclass of: anal pad
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: embryonic ventral epidermis
subclass of: Restriction
  on property: develops from
  some values from: anal pad primordium
definition: Anal pad of the embryo.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005748
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic anal pad
annotated property: definition
annotated target: Anal pad of the embryo.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

embryonic ventral apodeme
type: Class
subclass of: apodeme
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: embryonic ventral epidermis
subclass of: Restriction
  on property: develops from
  some values from: ventral apodeme primordium
definition: Ventral halve of an embryonic apodeme. The discontinuity between dorsal and ventral halves is visible on a lateral view.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005749
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic ventral apodeme
annotated property: definition
annotated target: Ventral halve of an embryonic apodeme. The discontinuity between dorsal and ventral halves is visible on a lateral view.
database_cross_reference: FlyBase:FBrf0089570

proventriculus
type: Class
subclass of: multi-tissue structure
subclass of: gut section
subclass of: Restriction
  on property: overlaps
  some values from: foregut
subclass of: Restriction
  on property: overlaps
  some values from: midgut
definition: Bulb-shaped organ at the junction of the foregut and midgut that regulates the passage of food into the midgut. The proventriculus folds back on itself to produce three epithelial layers: internally the posterior region of the esophagus, an intermediate (recurrent) layer, derived from the ectodermal foregut and the midgut, and an external anterior projection of the endodermal midgut, which grows over the esophageal region. The inner two layers form the gastric valve (cardial valve) while the outer layer is defined as the wall of the proventriculus. The cuticle that lines the inner wall is thicker than other regions in the cardia, and it forms several longitudinal folds, causing the esophageal lumen to appear irregular in cross section. Between the intermediate and outer wall is the cardia lumen, which opens posteriorly into the lumen of the midgut. The anterior region secretes the peritrophic membrane into the cardia lumen. The epithelium is surrounded by a thin tunic of striated muscle fibers.
has exact synonym: cardia
has narrow synonym: cardiac valve
has narrow synonym: gastric valve
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005752
in subset: cur
comment: This structure is more correctly referred to as the 'cardia'. Strictly, proventriculus refers to a modification of the foregut, just anterior to the stomodeal valve, found in many insects. Drosophila has no such foregut modification (Miller, 1950). However, the term 'proventriculus' is the one most commonly used for this structure.

Axiom
annotated source: proventriculus
annotated property: definition
annotated target: Bulb-shaped organ at the junction of the foregut and midgut that regulates the passage of food into the midgut. The proventriculus folds back on itself to produce three epithelial layers: internally the posterior region of the esophagus, an intermediate (recurrent) layer, derived from the ectodermal foregut and the midgut, and an external anterior projection of the endodermal midgut, which grows over the esophageal region. The inner two layers form the gastric valve (cardial valve) while the outer layer is defined as the wall of the proventriculus. The cuticle that lines the inner wall is thicker than other regions in the cardia, and it forms several longitudinal folds, causing the esophageal lumen to appear irregular in cross section. Between the intermediate and outer wall is the cardia lumen, which opens posteriorly into the lumen of the midgut. The anterior region secretes the peritrophic membrane into the cardia lumen. The epithelium is surrounded by a thin tunic of striated muscle fibers.
database_cross_reference: FlyBase:FBrf0007732
database_cross_reference: FlyBase:FBrf0007735
database_cross_reference: FlyBase:FBrf0048518
database_cross_reference: FlyBase:FBrf0064792

Axiom
annotated source: proventriculus
annotated property: hasExactSynonym
annotated target: cardia
database_cross_reference: FlyBase:FBrf0007735

Axiom
annotated source: proventriculus
annotated property: hasNarrowSynonym
annotated target: cardiac valve
database_cross_reference: FlyBase:FBrf0064792

Axiom
annotated source: proventriculus
annotated property: hasNarrowSynonym
annotated target: gastric valve
database_cross_reference: FlyBase:FBrf0064792

rectum
type: Class
subclass of: gut section
subclass of: Restriction
  on property: part of
  some values from: hindgut
definition: Posterior-most portion of the alimentary canal, terminating in the anus.
database_cross_reference: UBERON:0006866
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005756
in subset: cur

Axiom
annotated source: rectum
annotated property: definition
annotated target: Posterior-most portion of the alimentary canal, terminating in the anus.
database_cross_reference: FlyBase:FBrf0064792
database_cross_reference: FlyBase:FBrf0186027

anal pad
type: Class
subclass of: multicellular structure
subclass of: Restriction
  on property: part of
  some values from: hindgut
definition: Plate or plates that surrounds the anus.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005785
in subset: cur

Axiom
annotated source: anal pad
annotated property: definition
annotated target: Plate or plates that surrounds the anus.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

Malpighian tubule
type: Class
subclass of: epithelial tube
subclass of: Restriction
  on property: part of
  some values from: excretory system
subclass of: Restriction
  on property: continuous with
  some values from: hindgut
definition: Epithelial tube with excretory and osmoregulatory roles connected, via a ureter, to the alimentary canal at the junction of the hindgut and midgut. At mid-embryogenesis, there are 6 to 10 cells encircling the lumen, whereas later on, after a phase of tubule elongation, only 2 cells encircle the lumen. There are two pairs of Malpighian tubules: one pair arises from the dorsal part of the hindgut and lies at the anterior end of the abdomen; the other pair arises from the ventral part of the hindgut and lies at the posterior end of the abdomen. Each pair shares a common ureter. The anterior pair is longer than the posterior pair.
database_cross_reference: UBERON:0001054
has exact synonym: renal tubule
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005786
in subset: FB gloss
in subset: cur

Axiom
annotated source: Malpighian tubule
annotated property: definition
annotated target: Epithelial tube with excretory and osmoregulatory roles connected, via a ureter, to the alimentary canal at the junction of the hindgut and midgut. At mid-embryogenesis, there are 6 to 10 cells encircling the lumen, whereas later on, after a phase of tubule elongation, only 2 cells encircle the lumen. There are two pairs of Malpighian tubules: one pair arises from the dorsal part of the hindgut and lies at the anterior end of the abdomen; the other pair arises from the ventral part of the hindgut and lies at the posterior end of the abdomen. Each pair shares a common ureter. The anterior pair is longer than the posterior pair.
database_cross_reference: FlyBase:FBrf0030988
database_cross_reference: FlyBase:FBrf0160493
database_cross_reference: FlyBase:FBrf0166419

Axiom
annotated source: Malpighian tubule
annotated property: hasExactSynonym
annotated target: renal tubule
database_cross_reference: FlyBase:FBrf0209268

posterior Malpighian tubule
type: Class
subclass of: Malpighian tubule
definition: Posterior Malpighian tubule that extends from the midgut hindgut border. It is formed from the ventral part of the hindgut. There is a pair of these that are connected to a common ureter that is on the midgut/hindgut border. The posterior tubules extend towards the tail of the embryo, with each tubule positioned on opposite sides within the body cavity. At the end of embryogenesis, the distal ends switch sides by crossing over the posterior region of the hindgut. In the mature tubules, the tip cell of the posterior tubules makes contact with the a9 abdominal visceral nerve. The posterior tubule pair is shorter than the posterior one.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005787
in subset: cur

Axiom
annotated source: posterior Malpighian tubule
annotated property: definition
annotated target: Posterior Malpighian tubule that extends from the midgut hindgut border. It is formed from the ventral part of the hindgut. There is a pair of these that are connected to a common ureter that is on the midgut/hindgut border. The posterior tubules extend towards the tail of the embryo, with each tubule positioned on opposite sides within the body cavity. At the end of embryogenesis, the distal ends switch sides by crossing over the posterior region of the hindgut. In the mature tubules, the tip cell of the posterior tubules makes contact with the a9 abdominal visceral nerve. The posterior tubule pair is shorter than the posterior one.
database_cross_reference: FlyBase:FBrf0075100
database_cross_reference: FlyBase:FBrf0222532

specialized Malpighian tubule cell
type: Class
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: Malpighian tubule
definition: Specialized cell of the Malpighian tubules. There are four different types: type I, type II, tip and tiny cell.
has exact synonym: specialised Malpighian tubule cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005794
in subset: cur
in subset: scrnaseq slim
comment: Other cell types are known to exist, but have yet not been identified (personal communication by Helen Skaer).

Axiom
annotated source: specialized Malpighian tubule cell
annotated property: definition
annotated target: Specialized cell of the Malpighian tubules. There are four different types: type I, type II, tip and tiny cell.
database_cross_reference: FlyBase:FBrf0184042

Malpighian tubule tip cell
type: Class
subclass of: specialized Malpighian tubule cell
definition: Cell at the distal tip of each Malpighian tubule. It is involved in tube elongation in embryogenesis by stimulating cell proliferation in neighboring cells and in positioning the tubules.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005795
in subset: cur

Axiom
annotated source: Malpighian tubule tip cell
annotated property: definition
annotated target: Cell at the distal tip of each Malpighian tubule. It is involved in tube elongation in embryogenesis by stimulating cell proliferation in neighboring cells and in positioning the tubules.
database_cross_reference: FlyBase:FBrf0050653
database_cross_reference: FlyBase:FBrf0075100
database_cross_reference: FlyBase:FBrf0222532

extraembryonic structure
type: Class
subclass of: anatomical structure
definition: Structure associated with the embryo that does not contribute to the mature embryo (Reed et al., 2004).
database_cross_reference: CARO:0000042
database_cross_reference: UBERON:0000478
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005835
in subset: EmbDevSlim
in subset: cur
comment: Odd to be part_of embryo, but where would you put it instead? ds051110.

Axiom
annotated source: extraembryonic structure
annotated property: definition
annotated target: Structure associated with the embryo that does not contribute to the mature embryo (Reed et al., 2004).
database_cross_reference: FlyBase:FBrf0174479

adult peripheral nervous system
type: Class
equivalent class: Class
  intersection of: peripheral nervous system
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: peripheral nervous system
subclass of: Restriction
  on property: part of
  some values from: adult nervous system
definition: Peripheral nervous system of the adult.
database_cross_reference: VFB:FBbt_00005892
has exact synonym: adult PNS
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005892
in subset: cur

Axiom
annotated source: adult peripheral nervous system
annotated property: definition
annotated target: Peripheral nervous system of the adult.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

larval peripheral nervous system
type: Class
equivalent class: Class
  intersection of: peripheral nervous system
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: peripheral nervous system
subclass of: Restriction
  on property: part of
  some values from: larval nervous system
definition: Peripheral nervous system of the embryo or larva.
database_cross_reference: VFB:FBbt_00005893
has exact synonym: embryonic/larval PNS
has exact synonym: embryonic/larval peripheral nervous system
has exact synonym: larval PNS
has OBO namespace: fly_anatomy.ontology
id: FBbt:00005893
in subset: cur
in subset: larval OF

Axiom
annotated source: larval peripheral nervous system
annotated property: definition
annotated target: Peripheral nervous system of the embryo or larva.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

somatic trunk mesoderm derivative
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: develops from
    some values from: somatic trunk mesoderm
subclass of: trunk mesoderm derivative
subclass of: Restriction
  on property: develops from
  some values from: somatic trunk mesoderm
definition: Any anatomical entity (FBbt:10000000) that develops from some somatic trunk mesoderm (FBbt:00000129).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00006001
in subset: cur

Axiom
annotated source: somatic trunk mesoderm derivative
annotated property: definition
annotated target: Any anatomical entity (FBbt:10000000) that develops from some somatic trunk mesoderm (FBbt:00000129).
database_cross_reference: https://orcid.org/0000-0002-7073-9172

gonadal somatic stem cell
type: Class
equivalent class: Class
  intersection of: somatic stem cell
  intersection of: Restriction
    on property: part of
    some values from: gonad
subclass of: somatic stem cell
subclass of: Restriction
  on property: part of
  some values from: gonad
definition: Any somatic stem cell (FBbt:00007344) that is part of some gonad (FBbt:00004858).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00006010
in subset: cur

Axiom
annotated source: gonadal somatic stem cell
annotated property: definition
annotated target: Any somatic stem cell (FBbt:00007344) that is part of some gonad (FBbt:00004858).
database_cross_reference: FBC:Autogenerated

pharate adult
type: Class
subclass of: organism
subclass of: Restriction
  on property: develops from
  some values from: pupa
definition: The developing adult after pupal-adult apolysis, i.e. from stage P8 (when yellow eye color first becomes visible through the pupal case), to eclosion.
database_cross_reference: UBERON:6006011
has OBO namespace: fly_anatomy.ontology
id: FBbt:00006011
in subset: FB gloss
in subset: cur

Axiom
annotated source: pharate adult
annotated property: definition
annotated target: The developing adult after pupal-adult apolysis, i.e. from stage P8 (when yellow eye color first becomes visible through the pupal case), to eclosion.
database_cross_reference: FlyBase:FBrf0049147

somatic cell of ovariole
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: ovariole
subclass of: female-specific anatomical entity
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: ovariole
definition: Somatic cell that is part of the ovariole. This does not include the ovarian sheath.
has broad synonym: somatic cell of ovary
has OBO namespace: fly_anatomy.ontology
id: FBbt:00006030
in subset: cur
in subset: scrnaseq slim

Axiom
annotated source: somatic cell of ovariole
annotated property: definition
annotated target: Somatic cell that is part of the ovariole. This does not include the ovarian sheath.
database_cross_reference: FBC:VJ
database_cross_reference: FlyBase:FBrf0218159
database_cross_reference: https://orcid.org/0000-0002-8728-0281

anatomical structure
type: Class
subclass of: material anatomical entity
definition: Material anatomical entity that has inherent 3D shape, whose parts are all connected and that is generated by coordinated expression of the organism's own genome.
database_cross_reference: CARO:0000003
database_cross_reference: UBERON:0000061
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007001
in subset: cur
in subset: larval OF

Axiom
annotated source: anatomical structure
annotated property: definition
annotated target: Material anatomical entity that has inherent 3D shape, whose parts are all connected and that is generated by coordinated expression of the organism's own genome.
database_cross_reference: https://orcid.org/0000-0001-9114-8737
database_cross_reference: https://orcid.org/0000-0002-7073-9172

cell
type: Class
subclass of: anatomical structure
definition: Anatomical structure that has as its parts a maximally connected cell compartment surrounded by a plasma membrane.
database_cross_reference: CARO:0000013
database_cross_reference: CL:0000000
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007002
in subset: FB gloss
in subset: cur
in subset: larval OF

Axiom
annotated source: cell
annotated property: definition
annotated target: Anatomical structure that has as its parts a maximally connected cell compartment surrounded by a plasma membrane.
database_cross_reference: https://orcid.org/0000-0001-9114-8737

portion of tissue
type: Class
subclass of: multicellular structure
definition: Anatomical structure, that consists of similar cells and intercellular matrix, aggregated according to genetically determined spatial relationships.
database_cross_reference: CARO:0000043
database_cross_reference: UBERON:0000479
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007003
in subset: cur

Axiom
annotated source: portion of tissue
annotated property: definition
annotated target: Anatomical structure, that consists of similar cells and intercellular matrix, aggregated according to genetically determined spatial relationships.
database_cross_reference: https://orcid.org/0000-0001-9114-8737

epithelium
type: Class
subclass of: portion of tissue
definition: Portion of tissue, that consists of one or more layers of cells with distinct apical-basal polarity, connected to each other by cell junctions.
database_cross_reference: UBERON:0000483
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007005
in subset: cur

Axiom
annotated source: epithelium
annotated property: definition
annotated target: Portion of tissue, that consists of one or more layers of cells with distinct apical-basal polarity, connected to each other by cell junctions.
database_cross_reference: https://orcid.org/0000-0001-9114-8737

developing material anatomical entity
type: Class
subclass of: material anatomical entity
database_cross_reference: CARO:0000066
database_cross_reference: UBERON:0005423
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007006
in subset: cur

somatic precursor cell
type: Class
subclass of: developing material anatomical entity
subclass of: somatic cell
definition: Somatic cell that is a precursor to a mature cell.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007008
in subset: cur
in subset: scrnaseq slim

Axiom
annotated source: somatic precursor cell
annotated property: definition
annotated target: Somatic cell that is a precursor to a mature cell.
database_cross_reference: https://orcid.org/0000-0002-1373-1705

organism subdivision
type: Class
subclass of: multicellular structure
definition: Anatomical structure that is a primary subdivision of whole organism. The mereological sum of these is the whole organism.
database_cross_reference: CARO:0000032
database_cross_reference: UBERON:0000475
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007009
in subset: cur
in subset: larval OF

Axiom
annotated source: organism subdivision
annotated property: definition
annotated target: Anatomical structure that is a primary subdivision of whole organism. The mereological sum of these is the whole organism.
database_cross_reference: https://orcid.org/0000-0001-9114-8737

multi-tissue structure
type: Class
subclass of: multicellular structure
definition: Anatomical structure that has as its parts two or more portions of tissue of at least two different types and which, through specific morphogenetic processes, forms a single distinct structural unit demarcated by bona fide boundaries from other distinct structural units of different types.
database_cross_reference: CARO:0000055
database_cross_reference: UBERON:0000481
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007010
in subset: cur
in subset: larval OF

Axiom
annotated source: multi-tissue structure
annotated property: definition
annotated target: Anatomical structure that has as its parts two or more portions of tissue of at least two different types and which, through specific morphogenetic processes, forms a single distinct structural unit demarcated by bona fide boundaries from other distinct structural units of different types.
database_cross_reference: https://orcid.org/0000-0001-9114-8737

female organism
type: Class
subclass of: organism
definition: Gonochoristic organism that can produce female gametes.
database_cross_reference: CARO:0000028
database_cross_reference: UBERON:0003100
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007011
in subset: cur

Axiom
annotated source: female organism
annotated property: definition
annotated target: Gonochoristic organism that can produce female gametes.
database_cross_reference: https://orcid.org/0000-0001-9114-8737

cell component
type: Class
subclass of: anatomical structure
definition: Anatomical structure that is a direct part of a cell.
database_cross_reference: CARO:0000014
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007012
in subset: cur

Axiom
annotated source: cell component
annotated property: definition
annotated target: Anatomical structure that is a direct part of a cell.
database_cross_reference: https://orcid.org/0000-0001-9114-8737

acellular anatomical structure
type: Class
subclass of: anatomical structure
database_cross_reference: CARO:0000040
database_cross_reference: UBERON:0000476
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007013
in subset: cur

stem cell
type: Class
subclass of: cell
definition: Undifferentiated cell which retains its identity while budding off cells which differentiate.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007014
in subset: cur
in subset: expressionslim flybase ribbon

Axiom
annotated source: stem cell
annotated property: definition
annotated target: Undifferentiated cell which retains its identity while budding off cells which differentiate.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

immaterial anatomical entity
type: Class
subclass of: anatomical entity
definition: Anatomical entity that has no mass.
database_cross_reference: CARO:0000007
database_cross_reference: UBERON:0000466
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007015
in subset: cur

Axiom
annotated source: immaterial anatomical entity
annotated property: definition
annotated target: Anatomical entity that has no mass.
database_cross_reference: CARO:0000007

material anatomical entity
type: Class
subclass of: anatomical entity
database_cross_reference: CARO:0000006
database_cross_reference: UBERON:0000465
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007016
in subset: cur
in subset: larval OF

cuboidal/columnar epithelium
type: Class
subclass of: epithelium
definition: An epithelium consisting of columnar shaped cells.
database_cross_reference: UBERON:0000485
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007027
in subset: cur

Axiom
annotated source: cuboidal/columnar epithelium
annotated property: definition
annotated target: An epithelium consisting of columnar shaped cells.
database_cross_reference: FlyBase:FBrf0239342

squamous epithelium
type: Class
subclass of: epithelium
definition: A type of epithelium that is made up of flattened cells which are arranged with their long axes in the plane of the epithelium.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007028
in subset: cur

Axiom
annotated source: squamous epithelium
annotated property: definition
annotated target: A type of epithelium that is made up of flattened cells which are arranged with their long axes in the plane of the epithelium.
database_cross_reference: FlyBase:FBrf0239342

trunk ectoderm
type: Class
subclass of: developing embryonic structure
subclass of: Restriction
  on property: part of
  some values from: ectoderm
definition: The region of the ectoderm posterior to the cephalic furrow.
database_cross_reference: UBERON:6007045
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007045

Axiom
annotated source: trunk ectoderm
annotated property: definition
annotated target: The region of the ectoderm posterior to the cephalic furrow.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

dorsal ectoderm derivative
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: develops from
    some values from: dorsal ectoderm
subclass of: ectodermal derivative
subclass of: Restriction
  on property: develops from
  some values from: dorsal ectoderm
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007046

larval neuroblast
type: Class
equivalent class: Class
  intersection of: neuroblast
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: neuroblast
subclass of: Restriction
  on property: part of
  some values from: larval central nervous system
definition: Any neuroblast of the larva.
has broad synonym: embryonic/larval neuroblast
database_cross_reference: VFB:FBbt_00007115
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007115
in subset: cur

Axiom
annotated source: larval neuroblast
annotated property: definition
annotated target: Any neuroblast of the larva.
database_cross_reference: FlyBase:FBrf0047815

presumptive embryonic/larval system
type: Class
equivalent class: Class
  intersection of: non-connected developing system
  intersection of: Restriction
    on property: overlaps
    some values from: embryo
subclass of: developing embryonic structure
subclass of: non-connected developing system
definition: The sum of all the developing presumptive components of a specific embryonic/larval system in an embryo.
database_cross_reference: UBERON:6007116
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007116

Axiom
annotated source: presumptive embryonic/larval system
annotated property: definition
annotated target: The sum of all the developing presumptive components of a specific embryonic/larval system in an embryo.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

female germline cyst
type: Class
subclass of: germline cyst
subclass of: female-specific anatomical entity
subclass of: Restriction
  on property: part of
  some values from: ovariole
subclass of: Restriction
  on property: develops from
  some values from: cystoblast
definition: A cyst of female germ cells interconnected by ring canals. Each cyst originates from a single cystoblast which divides to form 16 cyst cells. These become enveloped in a follicle cell epithelium as they pass through region 2 of the germarium. Cysts that have left the germarium are termed egg chambers.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007137

Axiom
annotated source: female germline cyst
annotated property: definition
annotated target: A cyst of female germ cells interconnected by ring canals. Each cyst originates from a single cystoblast which divides to form 16 cyst cells. These become enveloped in a follicle cell epithelium as they pass through region 2 of the germarium. Cysts that have left the germarium are termed egg chambers.
database_cross_reference: FlyBase:FBrf0064777

cuticular specialization
type: Class
subclass of: acellular anatomical structure
subclass of: Restriction
  on property: part of
  some values from: cuticle
definition: Specialized structure that is found on the cuticle.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2008-10-22T02:20:05Z
database_cross_reference: UBERON:6007245
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007245

Axiom
annotated source: cuticular specialization
annotated property: definition
annotated target: Specialized structure that is found on the cuticle.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

disconnected anatomical group
type: Class
subclass of: material anatomical entity
definition: Material anatomical entity generated by coordinated expression of the organism's own genome and whose component parts are not all continuous with each other.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2008-11-04T03:09:28Z
database_cross_reference: UBERON:0034923
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007276

Axiom
annotated source: disconnected anatomical group
annotated property: definition
annotated target: Material anatomical entity generated by coordinated expression of the organism's own genome and whose component parts are not all continuous with each other.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

anatomical cluster
type: Class
subclass of: disconnected anatomical group
definition: Anatomical group whose component anatomical structures lie in close proximity to each other.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2008-11-04T03:13:41Z
database_cross_reference: UBERON:0000477
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007277

Axiom
annotated source: anatomical cluster
annotated property: definition
annotated target: Anatomical group whose component anatomical structures lie in close proximity to each other.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

segmental subdivision of integument
type: Class
subclass of: segmental subdivision of organ system
subclass of: Restriction
  on property: part of
  some values from: integumentary system
definition: A segmental subdivision of the integument of the whole animal.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2008-11-06T02:12:48Z
database_cross_reference: UBERON:6007285
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007285

Axiom
annotated source: segmental subdivision of integument
annotated property: definition
annotated target: A segmental subdivision of the integument of the whole animal.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

integumentary specialization
type: Class
subclass of: anatomical entity
subclass of: Restriction
  on property: part of
  some values from: integumentary system
definition: Specialized structure that is found on the integument.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2008-11-06T03:13:52Z
database_cross_reference: UBERON:6007288
has exact synonym: integumentary specialisation
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007288

Axiom
annotated source: integumentary specialization
annotated property: definition
annotated target: Specialized structure that is found on the integument.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

syncytium
type: Class
subclass of: cell
definition: A multi-nucleate cell having no internal boundaries between nuclei.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2008-11-06T05:12:28Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007290

Axiom
annotated source: syncytium
annotated property: definition
annotated target: A multi-nucleate cell having no internal boundaries between nuclei.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

epidermal cell
type: Class
equivalent class: Class
  intersection of: epithelial cell
  intersection of: Restriction
    on property: part of
    some values from: epidermis
subclass of: epithelial cell
subclass of: Restriction
  on property: part of
  some values from: epidermis
definition: Any epithelial cell (FBbt:00000124) that is part of some epidermis (FBbt:00004993).
contributor: https://orcid.org/0000-0002-7073-9172
date: 2008-12-05T05:34:12Z
database_cross_reference: CL:0000463
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007325
in subset: scrnaseq slim

Axiom
annotated source: epidermal cell
annotated property: definition
annotated target: Any epithelial cell (FBbt:00000124) that is part of some epidermis (FBbt:00004993).
database_cross_reference: FBC:Autogenerated

organ system subdivision
type: Class
subclass of: multicellular structure
subclass of: Restriction
  on property: part of
  some values from: organ system
definition: Any subdivision of an organ system.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2008-12-12T07:22:29Z
database_cross_reference: UBERON:0011216
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007330

Axiom
annotated source: organ system subdivision
annotated property: definition
annotated target: Any subdivision of an organ system.
database_cross_reference: https://orcid.org/0000-0002-1373-1705

segmental subdivision of organ system
type: Class
subclass of: organ system subdivision
definition: The part of some organism that is part of some specified segment.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2008-12-12T07:22:57Z
database_cross_reference: UBERON:6007331
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007331

Axiom
annotated source: segmental subdivision of organ system
annotated property: definition
annotated target: The part of some organism that is part of some specified segment.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

tagmatic subdivision of organ system
type: Class
subclass of: organ system subdivision
definition: The part of an organ system that is part of some specified tagma.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2008-12-12T07:23:28Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007332

Axiom
annotated source: tagmatic subdivision of organ system
annotated property: definition
annotated target: The part of an organ system that is part of some specified tagma.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

somatic stem cell
type: Class
subclass of: somatic precursor cell
subclass of: stem cell
definition: Stem cell that is a progenitor of somatic cells.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2009-06-25T05:38:39Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007344

Axiom
annotated source: somatic stem cell
annotated property: definition
annotated target: Stem cell that is a progenitor of somatic cells.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

epithelial tube
type: Class
subclass of: epithelium
definition: A tubular epithelium.
database_cross_reference: UBERON:0003914
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007474

Axiom
annotated source: epithelial tube
annotated property: definition
annotated target: A tubular epithelium.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

nervous system of embryonic/larval abdomen
type: Class
subclass of: tagmatic subdivision of organ system
subclass of: Restriction
  on property: part of
  some values from: larval nervous system
definition: The portion of the embryonic/larval nervous system that is part of the abdomen.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2010-09-28T06:02:33Z
database_cross_reference: VFB:FBbt_00007486
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007486
in subset: cur

Axiom
annotated source: nervous system of embryonic/larval abdomen
annotated property: definition
annotated target: The portion of the embryonic/larval nervous system that is part of the abdomen.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

embryonic/larval gut
type: Class
equivalent class: Class
  intersection of: gut
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: gut
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval alimentary canal
definition: Structure consisting of the embryonic/larval foregut, midgut and hindgut.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2010-10-04T09:58:25Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007512

Axiom
annotated source: embryonic/larval gut
annotated property: definition
annotated target: Structure consisting of the embryonic/larval foregut, midgut and hindgut.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

adult gut
type: Class
equivalent class: Class
  intersection of: gut
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: gut
subclass of: Restriction
  on property: part of
  some values from: adult alimentary canal
definition: Structure consisting of a simple epithelium surrounded by visceral muscles, nerves and tracheae. The adult gut is divided into the adult foregut, midgut and hindgut regions, based on developmental origin.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2010-10-04T11:02:39Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007513

Axiom
annotated source: adult gut
annotated property: definition
annotated target: Structure consisting of a simple epithelium surrounded by visceral muscles, nerves and tracheae. The adult gut is divided into the adult foregut, midgut and hindgut regions, based on developmental origin.
database_cross_reference: FlyBase:FBrf0223413
database_cross_reference: https://orcid.org/0000-0002-7073-9172

abdominal apodeme
type: Class
equivalent class: Class
  intersection of: apodeme
  intersection of: Restriction
    on property: part of
    some values from: abdomen
subclass of: apodeme
subclass of: Restriction
  on property: part of
  some values from: abdomen
definition: Any apodeme (FBbt:00005091) that is part of some abdomen (FBbt:00000020).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007585

Axiom
annotated source: abdominal apodeme
annotated property: definition
annotated target: Any apodeme (FBbt:00005091) that is part of some abdomen (FBbt:00000020).
database_cross_reference: FBC:Autogenerated

fused midgut primordium
type: Class
subclass of: embryonic/larval midgut primordium
subclass of: Restriction
  on property: develops into
  some values from: embryonic/larval midgut
definition: The developing larval midgut from the beginning of fusion of the anterior and posterior midgut primordia during stage 12 through the completion of fusion at the dorsal and ventral midlines during stage 15 to the completion of gastric caecum development during stage 16.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007593

Axiom
annotated source: fused midgut primordium
annotated property: definition
annotated target: The developing larval midgut from the beginning of fusion of the anterior and posterior midgut primordia during stage 12 through the completion of fusion at the dorsal and ventral midlines during stage 15 to the completion of gastric caecum development during stage 16.
database_cross_reference: FlyBase:FBrf0089570

embryonic/larval salivary gland body
type: Class
subclass of: ventral ectoderm derivative
subclass of: gland
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval salivary gland
subclass of: Restriction
  on property: develops from
  some values from: salivary gland body primordium
subclass of: Restriction
  on property: capable of
  some values from: GO_0046541
definition: Salivary gland body of the embryo or larva.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007594
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic/larval salivary gland body
annotated property: definition
annotated target: Salivary gland body of the embryo or larva.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

trichome field
type: Class
subclass of: BFO_0000040
subclass of: anatomical cluster
subclass of: Restriction
  on property: composed primarily of
  some values from: trichome
definition: A group of trichomes covering a region of integument.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00007658

Axiom
annotated source: trichome field
annotated property: definition
annotated target: A group of trichomes covering a region of integument.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

early extended germ band embryo
type: Class
subclass of: extended germ band embryo
definition: A collective term for stages 9 and 10.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00014201
in subset: cur

Axiom
annotated source: early extended germ band embryo
annotated property: definition
annotated target: A collective term for stages 9 and 10.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

presumptive oocyte
type: Class
subclass of: cyst cell of female germline 16-cell cyst
definition: Cyst cell that will develop into the oocyte. There is one of these in each 16-cell cyst and it is one of the two cells that has four connections to other cyst cells (Spradling, 1993).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00014874
in subset: cur

Axiom
annotated source: presumptive oocyte
annotated property: definition
annotated target: Cyst cell that will develop into the oocyte. There is one of these in each 16-cell cyst and it is one of the two cells that has four connections to other cyst cells (Spradling, 1993).
database_cross_reference: FlyBase:FBrf0049384
database_cross_reference: FlyBase:FBrf0049811
database_cross_reference: FlyBase:FBrf0064777
database_cross_reference: FlyBase:FBrf0076495
database_cross_reference: FlyBase:FBrf0134525
database_cross_reference: FlyBase:FBrf0134565

ventral trunk epidermis primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: late extended germ band embryo
subclass of: Restriction
  on property: part of
  some values from: dorsal closure embryo
subclass of: Restriction
  on property: develops from
  some values from: ventral epidermis primordium
subclass of: Restriction
  on property: develops into
  some values from: embryonic ventral trunk epidermis
definition: Primordium of the ventral trunk epidermis of the late extended germ band and dorsal closure embryo that will give rise to the embryonic ventral trunk epidermis.
has exact synonym: P1 VenEp
has OBO namespace: fly_anatomy.ontology
id: FBbt:00016007
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: ventral trunk epidermis primordium
annotated property: definition
annotated target: Primordium of the ventral trunk epidermis of the late extended germ band and dorsal closure embryo that will give rise to the embryonic ventral trunk epidermis.
database_cross_reference: FBC:VH

Axiom
annotated source: ventral trunk epidermis primordium
annotated property: hasExactSynonym
annotated target: P1 VenEp
database_cross_reference: https://orcid.org/0000-0002-7073-9172

anal pad primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: late extended germ band embryo
subclass of: Restriction
  on property: part of
  some values from: dorsal closure embryo
subclass of: Restriction
  on property: develops from
  some values from: ventral epidermis primordium
subclass of: Restriction
  on property: develops into
  some values from: embryonic anal pad
definition: Primordium of the anal pad of the late extended germ band and dorsal closure embryo that will give rise to the embryonic anal pads.
has OBO namespace: fly_anatomy.ontology
has related synonym: A/P1 AnPd
has related synonym: anal pad specific anlage
id: FBbt:00016008
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: anal pad primordium
annotated property: definition
annotated target: Primordium of the anal pad of the late extended germ band and dorsal closure embryo that will give rise to the embryonic anal pads.
database_cross_reference: FBC:VH

Axiom
annotated source: anal pad primordium
annotated property: hasRelatedSynonym
annotated target: A/P1 AnPd
database_cross_reference: https://orcid.org/0000-0002-7073-9172

ventral apodeme anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: late extended germ band embryo
subclass of: Restriction
  on property: develops from
  some values from: ventral epidermis primordium
subclass of: Restriction
  on property: develops into
  some values from: ventral apodeme primordium
definition: Anlage of the ventral apodeme of the late extended germ band embryo that will give rise to the ventral apodeme primordium.
has exact synonym: A venApo
has OBO namespace: fly_anatomy.ontology
id: FBbt:00016009
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: ventral apodeme anlage
annotated property: definition
annotated target: Anlage of the ventral apodeme of the late extended germ band embryo that will give rise to the ventral apodeme primordium.
database_cross_reference: FBC:VH

Axiom
annotated source: ventral apodeme anlage
annotated property: hasExactSynonym
annotated target: A venApo
database_cross_reference: https://orcid.org/0000-0002-7073-9172

ventral apodeme primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: dorsal closure embryo
subclass of: Restriction
  on property: develops from
  some values from: ventral apodeme anlage
subclass of: Restriction
  on property: develops into
  some values from: embryonic ventral apodeme
definition: Primordium of the ventral apodeme of the dorsal closure embryo that will give rise to the ventral apodemes.
has exact synonym: P1 venApo
has OBO namespace: fly_anatomy.ontology
has related synonym: ventral apodeme specific primordium
id: FBbt:00016010
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: ventral apodeme primordium
annotated property: definition
annotated target: Primordium of the ventral apodeme of the dorsal closure embryo that will give rise to the ventral apodemes.
database_cross_reference: FBC:VH

Axiom
annotated source: ventral apodeme primordium
annotated property: hasExactSynonym
annotated target: P1 venApo
database_cross_reference: https://orcid.org/0000-0002-7073-9172

denticle field primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: dorsal closure embryo
subclass of: Restriction
  on property: develops from
  some values from: denticle field anlage
subclass of: Restriction
  on property: develops into
  some values from: denticle field
definition: Primordium of the denticle field of the dorsal closure embryo that will give rise to the larval denticle fields.
has exact synonym: P DenBl
has OBO namespace: fly_anatomy.ontology
id: FBbt:00016011
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: denticle field primordium
annotated property: definition
annotated target: Primordium of the denticle field of the dorsal closure embryo that will give rise to the larval denticle fields.
database_cross_reference: FBC:VH

Axiom
annotated source: denticle field primordium
annotated property: hasExactSynonym
annotated target: P DenBl
database_cross_reference: https://orcid.org/0000-0002-7073-9172

denticle field
type: Class
subclass of: trichome field
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval cuticle
subclass of: Restriction
  on property: develops from
  some values from: denticle field primordium
definition: Region of embryonic and larval ventral cuticle that displays denticle belts. It develops from the denticle field primordium.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00016012
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: denticle field
annotated property: definition
annotated target: Region of embryonic and larval ventral cuticle that displays denticle belts. It develops from the denticle field primordium.
database_cross_reference: FBC:VH
database_cross_reference: FlyBase:FBrf0089570

amnioserosa primordium
type: Class
subclass of: developing embryonic structure
subclass of: primordium
subclass of: Restriction
  on property: part of
  some values from: dorsal ectoderm
subclass of: Restriction
  on property: part of
  some values from: early extended germ band embryo
subclass of: Restriction
  on property: develops from
  some values from: amnioserosa anlage
subclass of: Restriction
  on property: develops into
  some values from: amnioserosa
definition: Dorsalmost region of the ectoderm, which will develop into the amnioserosa (Stathopoulos and Newcomb, 2020).
has exact synonym: P1 amnioserosa
has OBO namespace: fly_anatomy.ontology
id: FBbt:00017000
in subset: cur

Axiom
annotated source: amnioserosa primordium
annotated property: definition
annotated target: Dorsalmost region of the ectoderm, which will develop into the amnioserosa (Stathopoulos and Newcomb, 2020).
database_cross_reference: FlyBase:FBrf0244630
database_cross_reference: FlyBase:FBrf0246683

Axiom
annotated source: amnioserosa primordium
annotated property: hasExactSynonym
annotated target: P1 amnioserosa
database_cross_reference: https://orcid.org/0000-0002-7073-9172

amnioserosa anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: Restriction
  on property: part of
  some values from: gastrula embryo
subclass of: Restriction
  on property: develops from
  some values from: amnioserosa anlage in statu nascendi
subclass of: Restriction
  on property: develops into
  some values from: amnioserosa primordium
definition: Anlage of the amnioserosa in the gastrula embryo that will give rise to the amnioserosa primordium.
has exact synonym: A amnioser P3
has OBO namespace: fly_anatomy.ontology
id: FBbt:00017017
in subset: cur

Axiom
annotated source: amnioserosa anlage
annotated property: definition
annotated target: Anlage of the amnioserosa in the gastrula embryo that will give rise to the amnioserosa primordium.
database_cross_reference: FBC:VH

Axiom
annotated source: amnioserosa anlage
annotated property: hasExactSynonym
annotated target: A amnioser P3
database_cross_reference: https://orcid.org/0000-0002-7073-9172

ectodermal derivative
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: develops from
    some values from: ectoderm
subclass of: germ layer derivative
subclass of: Restriction
  on property: develops from
  some values from: ectoderm
definition: Any anatomical entity (FBbt:10000000) that develops from some ectoderm (FBbt:00000111).
has alternative id: FBbt:00005253
has OBO namespace: fly_anatomy.ontology
id: FBbt:00025990
in subset: cur

Axiom
annotated source: ectodermal derivative
annotated property: definition
annotated target: Any anatomical entity (FBbt:10000000) that develops from some ectoderm (FBbt:00000111).
database_cross_reference: FlyBase:FBrf0043441
database_cross_reference: FlyBase:FBrf0053832

anterior ectoderm derivative
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: develops from
    some values from: anterior ectoderm
subclass of: ectodermal derivative
subclass of: Restriction
  on property: develops from
  some values from: anterior ectoderm
definition: Any anatomical entity (FBbt:10000000) that develops from some anterior ectoderm (FBbt:00000119).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00025991
in subset: cur

Axiom
annotated source: anterior ectoderm derivative
annotated property: definition
annotated target: Any anatomical entity (FBbt:10000000) that develops from some anterior ectoderm (FBbt:00000119).
database_cross_reference: https://orcid.org/0000-0002-7073-9172

posterior ectoderm derivative
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: develops from
    some values from: posterior ectoderm
subclass of: ectodermal derivative
subclass of: Restriction
  on property: develops from
  some values from: posterior ectoderm
definition: Any anatomical entity (FBbt:10000000) that develops from some posterior ectoderm (FBbt:00000122).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00025992
in subset: cur

Axiom
annotated source: posterior ectoderm derivative
annotated property: definition
annotated target: Any anatomical entity (FBbt:10000000) that develops from some posterior ectoderm (FBbt:00000122).
database_cross_reference: https://orcid.org/0000-0002-7073-9172

ventral ectoderm derivative
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: develops from
    some values from: ventral ectoderm
subclass of: ectodermal derivative
subclass of: Restriction
  on property: develops from
  some values from: ventral ectoderm
definition: Any anatomical entity (FBbt:10000000) that develops from some ventral ectoderm (FBbt:00005558).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00025993
in subset: cur

Axiom
annotated source: ventral ectoderm derivative
annotated property: definition
annotated target: Any anatomical entity (FBbt:10000000) that develops from some ventral ectoderm (FBbt:00005558).
database_cross_reference: https://orcid.org/0000-0002-7073-9172

endodermal derivative
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: develops from
    some values from: endoderm
subclass of: germ layer derivative
subclass of: Restriction
  on property: develops from
  some values from: endoderm
definition: Any anatomical entity (FBbt:10000000) that develops from some endoderm (FBbt:00000125).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00025994
in subset: cur

Axiom
annotated source: endodermal derivative
annotated property: definition
annotated target: Any anatomical entity (FBbt:10000000) that develops from some endoderm (FBbt:00000125).
database_cross_reference: FlyBase:FBrf0043441
database_cross_reference: FlyBase:FBrf0053832

posterior endoderm derivative
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: develops from
    some values from: posterior endoderm
subclass of: endodermal derivative
subclass of: Restriction
  on property: develops from
  some values from: posterior endoderm
definition: Any anatomical entity (FBbt:10000000) that develops from some posterior endoderm (FBbt:00005560).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00025995
in subset: cur

Axiom
annotated source: posterior endoderm derivative
annotated property: definition
annotated target: Any anatomical entity (FBbt:10000000) that develops from some posterior endoderm (FBbt:00005560).
database_cross_reference: https://orcid.org/0000-0002-7073-9172

mesectodermal derivative
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: develops from
    some values from: mesectoderm
subclass of: ectodermal derivative
subclass of: Restriction
  on property: develops from
  some values from: mesectoderm
definition: Any anatomical entity (FBbt:10000000) that develops from some mesectoderm (FBbt:00000136).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00025997
in subset: cur

Axiom
annotated source: mesectodermal derivative
annotated property: definition
annotated target: Any anatomical entity (FBbt:10000000) that develops from some mesectoderm (FBbt:00000136).
database_cross_reference: https://orcid.org/0000-0002-7073-9172

mesodermal derivative
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: develops from
    some values from: mesoderm
subclass of: germ layer derivative
subclass of: Restriction
  on property: develops from
  some values from: mesoderm
definition: Any anatomical entity (FBbt:10000000) that develops from some mesoderm (FBbt:00000126).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00025998
in subset: cur

Axiom
annotated source: mesodermal derivative
annotated property: definition
annotated target: Any anatomical entity (FBbt:10000000) that develops from some mesoderm (FBbt:00000126).
database_cross_reference: FlyBase:FBrf0043441
database_cross_reference: FlyBase:FBrf0053832

trunk mesoderm derivative
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: develops from
    some values from: trunk mesoderm
subclass of: mesodermal derivative
subclass of: Restriction
  on property: develops from
  some values from: trunk mesoderm
definition: Any anatomical entity (FBbt:10000000) that develops from some trunk mesoderm (FBbt:00000128).
has OBO namespace: fly_anatomy.ontology
id: FBbt:00026000
in subset: cur

Axiom
annotated source: trunk mesoderm derivative
annotated property: definition
annotated target: Any anatomical entity (FBbt:10000000) that develops from some trunk mesoderm (FBbt:00000128).
database_cross_reference: https://orcid.org/0000-0002-7073-9172

non-connected developing system
type: Class
subclass of: developing material anatomical entity
subclass of: disconnected anatomical group
definition: The sum of all the anlagen and primordia that will develop into a single system.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2010-04-29T07:57:11Z
database_cross_reference: UBERON:6040003
has OBO namespace: fly_anatomy.ontology
id: FBbt:00040003
comment: Note - this may be the precursor of a connected system that starts out non-connected, such as the tracheal system, or of a system that remains disconnected, e.g. functionally defined systems such as the endocrine system.

Axiom
annotated source: non-connected developing system
annotated property: definition
annotated target: The sum of all the anlagen and primordia that will develop into a single system.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

adult neuron
type: Class
equivalent class: Class
  intersection of: neuron
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: neuron
subclass of: Restriction
  on property: part of
  some values from: adult nervous system
definition: A neuron that is part of the adult nervous system. These can be born during the postembryonic phase of neurogenesis (Lacin and Truman, 2016) or they can develop from larval neurons during the pupal stage (Veverytsa and Allan, 2013).
contributor: https://orcid.org/0000-0002-1373-1705
date: 2020-02-19T16:52:12Z
database_cross_reference: VFB:FBbt_00047095
has OBO namespace: fly_anatomy.ontology
id: FBbt:00047095

Axiom
annotated source: adult neuron
annotated property: definition
annotated target: A neuron that is part of the adult nervous system. These can be born during the postembryonic phase of neurogenesis (Lacin and Truman, 2016) or they can develop from larval neurons during the pupal stage (Veverytsa and Allan, 2013).
database_cross_reference: FlyBase:FBrf0221900
database_cross_reference: FlyBase:FBrf0231327

larval caeca region
type: Class
subclass of: gut section
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval gut
definition: Larval gut region comprising the proventriculus, gastric caeca and anterior midgut.
contributor: https://orcid.org/0000-0002-1373-1705
has OBO namespace: fly_anatomy.ontology
id: FBbt:00047110

Axiom
annotated source: larval caeca region
annotated property: definition
annotated target: Larval gut region comprising the proventriculus, gastric caeca and anterior midgut.
database_cross_reference: FlyBase:FBrf0232530

gut
type: Class
subclass of: multi-tissue structure
subclass of: Restriction
  on property: part of
  some values from: alimentary canal
definition: Structure consisting of a simple epithelium surrounded by visceral muscles, nerves and tracheae. The gut is divided into foregut, midgut and hindgut regions, based on developmental origin.
contributor: https://orcid.org/0000-0002-1373-1705
has OBO namespace: fly_anatomy.ontology
id: FBbt:00047143

Axiom
annotated source: gut
annotated property: definition
annotated target: Structure consisting of a simple epithelium surrounded by visceral muscles, nerves and tracheae. The gut is divided into foregut, midgut and hindgut regions, based on developmental origin.
database_cross_reference: FlyBase:FBrf0223413

anus
type: Class
subclass of: gut section
subclass of: Restriction
  on property: part of
  some values from: rectum
definition: Posterior opening of the hindgut.
contributor: https://orcid.org/0000-0002-1373-1705
database_cross_reference: UBERON:0001245
has OBO namespace: fly_anatomy.ontology
id: FBbt:00047153

Axiom
annotated source: anus
annotated property: definition
annotated target: Posterior opening of the hindgut.
database_cross_reference: https://orcid.org/0000-0002-1373-1705

imaginal tissue
type: Class
subclass of: developing material anatomical entity
definition: Any group of similar imaginal cells, such as an imaginal disc, imaginal ring or imaginal island, or a precursor tissue that forms one of them. These tissues develop separately from other embryonic and larval tissues and they generate adult structures during metamorphosis.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2018-08-15T09:31:08Z
has exact synonym: imaginal structure
has OBO namespace: fly_anatomy.ontology
id: FBbt:00047552
in subset: expressionslim flybase ribbon

Axiom
annotated source: imaginal tissue
annotated property: definition
annotated target: Any group of similar imaginal cells, such as an imaginal disc, imaginal ring or imaginal island, or a precursor tissue that forms one of them. These tissues develop separately from other embryonic and larval tissues and they generate adult structures during metamorphosis.
database_cross_reference: FlyBase:FBrf0064789

Axiom
annotated source: imaginal tissue
annotated property: hasExactSynonym
annotated target: imaginal structure
database_cross_reference: FlyBase:FBrf0053815

female-specific neuron
type: Class
equivalent class: Class
  intersection of: neuron
  intersection of: Restriction
    on property: has characteristic
    some values from: PATO_0060003
subclass of: female-specific anatomical entity
subclass of: sexually-dimorphic neuron
definition: Neuron of the female that is not found in the male.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2019-03-14T09:36:56Z
database_cross_reference: VFB:FBbt_00048240
has OBO namespace: fly_anatomy.ontology
id: FBbt:00048240

Axiom
annotated source: female-specific neuron
annotated property: definition
annotated target: Neuron of the female that is not found in the male.
database_cross_reference: https://orcid.org/0000-0002-1373-1705

female reproductive gland
type: Class
equivalent class: Class
  intersection of: gland
  intersection of: Restriction
    on property: part of
    some values from: female reproductive system
subclass of: female-specific anatomical entity
subclass of: gland
subclass of: Restriction
  on property: part of
  some values from: female reproductive system
subclass of: Restriction
  on property: capable of
  some values from: GO_0007589
definition: Gland of the female reproductive system. These specialized glands produce mucus-rich secretions that capacitate sperm to fertilize successfully, inhibit infection, and provide nutritional, maintenance, and storage factors.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2019-08-30T09:18:05Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00048425

Axiom
annotated source: female reproductive gland
annotated property: definition
annotated target: Gland of the female reproductive system. These specialized glands produce mucus-rich secretions that capacitate sperm to fertilize successfully, inhibit infection, and provide nutritional, maintenance, and storage factors.
database_cross_reference: FlyBase:FBrf0218434
database_cross_reference: FlyBase:FBrf0221317

female-specific anatomical entity
type: Class
equivalent class: Class
  intersection of: anatomical entity
  intersection of: Restriction
    on property: has characteristic
    some values from: PATO_0060003
subclass of: anatomical entity
subclass of: Restriction
  on property: part of
  some values from: female organism
subclass of: Restriction
  on property: has characteristic
  some values from: PATO_0060003
definition: Anatomical entity of the female that is not found in the same form in the male. If there is a counterpart in the male, the male and female types are substantially different.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2019-11-11T11:00:00Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00048491
comment: For example, the ovary is female-specific since it is substantially different to the testis, which may be considered to be the male-specific counterpart. A female wing is not substantially different to a male wing, so is not considered female-specific.

Axiom
annotated source: female-specific anatomical entity
annotated property: definition
annotated target: Anatomical entity of the female that is not found in the same form in the male. If there is a counterpart in the male, the male and female types are substantially different.
database_cross_reference: https://orcid.org/0000-0002-1373-1705

female germline 2-cell cyst
type: Class
subclass of: female germline cyst
subclass of: Restriction
  on property: part of
  some values from: germarium
definition: Cyst composed of two cyst cells following the division of a newly-formed cystoblast in the germarium. The two cells are connected by a cytoplasmic bridge.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2020-01-14T16:18:17Z
has exact synonym: germarial 2-cell cluster
has OBO namespace: fly_anatomy.ontology
id: FBbt:00048531

Axiom
annotated source: female germline 2-cell cyst
annotated property: definition
annotated target: Cyst composed of two cyst cells following the division of a newly-formed cystoblast in the germarium. The two cells are connected by a cytoplasmic bridge.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0064777

Axiom
annotated source: female germline 2-cell cyst
annotated property: hasExactSynonym
annotated target: germarial 2-cell cluster
database_cross_reference: FlyBase:FBrf0021038

female germline 4-cell cyst
type: Class
subclass of: female germline cyst
subclass of: Restriction
  on property: part of
  some values from: germarium
subclass of: Restriction
  on property: develops from
  some values from: female germline 2-cell cyst
definition: Cyst composed of 4 cyst cells following the division of each cyst cell in a 2-cell cyst. The cells remain connected by cytoplasmic bridges following division.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2020-01-14T16:22:03Z
has exact synonym: germarial 4-cell cluster
has OBO namespace: fly_anatomy.ontology
id: FBbt:00048532

Axiom
annotated source: female germline 4-cell cyst
annotated property: definition
annotated target: Cyst composed of 4 cyst cells following the division of each cyst cell in a 2-cell cyst. The cells remain connected by cytoplasmic bridges following division.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0064777

Axiom
annotated source: female germline 4-cell cyst
annotated property: hasExactSynonym
annotated target: germarial 4-cell cluster
database_cross_reference: FlyBase:FBrf0021038

female germline 8-cell cyst
type: Class
subclass of: female germline cyst
subclass of: Restriction
  on property: part of
  some values from: germarium
subclass of: Restriction
  on property: develops from
  some values from: female germline 4-cell cyst
definition: Cyst composed of 8 cyst cells following the division of each cyst cell in a 4-cell cyst. The cells remain connected by cytoplasmic bridges following division.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2020-01-14T16:22:44Z
has exact synonym: germarial 8-cell cluster
has OBO namespace: fly_anatomy.ontology
id: FBbt:00048533

Axiom
annotated source: female germline 8-cell cyst
annotated property: definition
annotated target: Cyst composed of 8 cyst cells following the division of each cyst cell in a 4-cell cyst. The cells remain connected by cytoplasmic bridges following division.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0064777

Axiom
annotated source: female germline 8-cell cyst
annotated property: hasExactSynonym
annotated target: germarial 8-cell cluster
database_cross_reference: FlyBase:FBrf0021038

female germline 16-cell cyst
type: Class
subclass of: female germline cyst
subclass of: Restriction
  on property: part of
  some values from: germarium
subclass of: Restriction
  on property: develops from
  some values from: female germline 8-cell cyst
definition: Cyst composed of 16 cyst cells following the division of each cyst cell in an 8-cell cyst. The cells remain connected by cytoplasmic bridges following division.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2020-01-14T16:23:06Z
has exact synonym: germarial 16-cell cluster
has OBO namespace: fly_anatomy.ontology
id: FBbt:00048534

Axiom
annotated source: female germline 16-cell cyst
annotated property: definition
annotated target: Cyst composed of 16 cyst cells following the division of each cyst cell in an 8-cell cyst. The cells remain connected by cytoplasmic bridges following division.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0064777

Axiom
annotated source: female germline 16-cell cyst
annotated property: hasExactSynonym
annotated target: germarial 16-cell cluster
database_cross_reference: FlyBase:FBrf0021038

larval ovary
type: Class
subclass of: gonad
subclass of: female-specific anatomical entity
subclass of: Restriction
  on property: part of
  some values from: larva
definition: Immature ovary of the larva prior to formation of the adult ovary during metamorphosis. In a newly hatched larva, this contains around 8 to 12 germline stem cells. Throughout most of the larval stage, the (larger) germ cells are found in the middle region of the ovary and the (smaller) somatic mesodermal cells are found anteriorly and posteriorly. Germ cell and mesodermal cell multiplication during larval development increases the size of the larval ovary by approximately 50 fold. Differentiation of the ovary proper begins late in the third instar.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2020-01-15T15:00:48Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00048539

Axiom
annotated source: larval ovary
annotated property: definition
annotated target: Immature ovary of the larva prior to formation of the adult ovary during metamorphosis. In a newly hatched larva, this contains around 8 to 12 germline stem cells. Throughout most of the larval stage, the (larger) germ cells are found in the middle region of the ovary and the (smaller) somatic mesodermal cells are found anteriorly and posteriorly. Germ cell and mesodermal cell multiplication during larval development increases the size of the larval ovary by approximately 50 fold. Differentiation of the ovary proper begins late in the third instar.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0064777

precursor fat cell
type: Class
subclass of: developing embryonic structure
subclass of: somatic precursor cell
subclass of: Restriction
  on property: expresses
  some values from: FBgn0003507
definition: Precursor cell of the embryo that will develop into a larval fat cell. These can first be detected around stage 10 in segmentally-repeated clusters (primary clusters) in the eve-expressing domain of parasegments (PS) 4-9 and PS13, just ventral to the midgut visceral mesoderm (Riechmann et al., 1998). In PS10-12, gonadal precursors are instead found in this position (Riechmann et al., 1998). In PS13, precursor fat cells are also found in the dorsal mesoderm that would be occupied by heart and midgut precursors in other segments (Riechmann et al., 1998). Secondary clusters of precursors arise in two positions, directly posterior to, and ventral and anterior to, the primary cluster (or gonadal precursors) in PS4-13 (Riechmann et al., 1998). At the onset of germ band retraction, these cells begin to divide and form a continuous layer between the midgut visceral mesoderm and the somatic mesoderm, losing their segmental appearance (Riechmann et al., 1998). These cells do not accumulate lipids (Campos-Ortega and Hartenstein, 1997).
contributor: https://orcid.org/0000-0002-1373-1705
date: 2020-12-08T12:35:51Z
has exact synonym: developing fat-body cell
has exact synonym: embryonic adipose cell
has exact synonym: embryonic fat cell
has exact synonym: progenitor fat cell
has exact synonym: progenitor fat-body cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00049953
comment: Earliest marker is srp (Sam et al., 1996).

Axiom
annotated source: precursor fat cell
annotated property: definition
annotated target: Precursor cell of the embryo that will develop into a larval fat cell. These can first be detected around stage 10 in segmentally-repeated clusters (primary clusters) in the eve-expressing domain of parasegments (PS) 4-9 and PS13, just ventral to the midgut visceral mesoderm (Riechmann et al., 1998). In PS10-12, gonadal precursors are instead found in this position (Riechmann et al., 1998). In PS13, precursor fat cells are also found in the dorsal mesoderm that would be occupied by heart and midgut precursors in other segments (Riechmann et al., 1998). Secondary clusters of precursors arise in two positions, directly posterior to, and ventral and anterior to, the primary cluster (or gonadal precursors) in PS4-13 (Riechmann et al., 1998). At the onset of germ band retraction, these cells begin to divide and form a continuous layer between the midgut visceral mesoderm and the somatic mesoderm, losing their segmental appearance (Riechmann et al., 1998). These cells do not accumulate lipids (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0092674
database_cross_reference: FlyBase:FBrf0101991

Axiom
annotated source: precursor fat cell
annotated property: hasExactSynonym
annotated target: developing fat-body cell
database_cross_reference: FlyBase:FBrf0092674

Axiom
annotated source: precursor fat cell
annotated property: hasExactSynonym
annotated target: progenitor fat cell
database_cross_reference: FlyBase:FBrf0092674

Axiom
annotated source: precursor fat cell
annotated property: hasExactSynonym
annotated target: progenitor fat-body cell
database_cross_reference: FlyBase:FBrf0092674

sexually-dimorphic neuron
type: Class
equivalent class: Class
  intersection of: neuron
  intersection of: Restriction
    on property: has characteristic
    some values from: PATO_0002451
subclass of: neuron
subclass of: Restriction
  on property: has characteristic
  some values from: PATO_0002451
definition: Any neuron (FBbt:00005106) that has characteristic some sexually dimorphic (PATO:0002451).
contributor: https://orcid.org/0000-0002-1373-1705
date: 2021-04-01T12:50:00Z
database_cross_reference: VFB:FBbt_00051203
has OBO namespace: fly_anatomy.ontology
id: FBbt:00051203

Axiom
annotated source: sexually-dimorphic neuron
annotated property: definition
annotated target: Any neuron (FBbt:00005106) that has characteristic some sexually dimorphic (PATO:0002451).
database_cross_reference: FBC:Autogenerated

segmentally-repeated neuroblast
type: Class
subclass of: neuroblast
subclass of: ectodermal derivative
subclass of: Restriction
  on property: part of
  some values from: central nervous system
subclass of: Restriction
  on property: develops from
  some values from: neurogenic region
definition: Neuroblast that has serial homologues across multiple neuromeres. All neuroblasts of the ventral nerve cord and gnathal ganglia are segmentally-repeated (Urbach et al., 2016). Most neuroblasts of the tritocerebrum and some neuroblasts of the deutocerebrum also have serial homology to neuroblasts of more posterior segments (Urbach et al., 2016).
contributor: https://orcid.org/0000-0002-1373-1705
date: 2021-06-10T15:10:07Z
database_cross_reference: VFB:FBbt_00051362
has exact synonym: serially-homologous neuroblast
has OBO namespace: fly_anatomy.ontology
id: FBbt:00051362
comment: Applies to neuroblasts at all stages of development.

Axiom
annotated source: segmentally-repeated neuroblast
annotated property: definition
annotated target: Neuroblast that has serial homologues across multiple neuromeres. All neuroblasts of the ventral nerve cord and gnathal ganglia are segmentally-repeated (Urbach et al., 2016). Most neuroblasts of the tritocerebrum and some neuroblasts of the deutocerebrum also have serial homology to neuroblasts of more posterior segments (Urbach et al., 2016).
database_cross_reference: FlyBase:FBrf0232096

Axiom
annotated source: segmentally-repeated neuroblast
annotated property: hasExactSynonym
annotated target: serially-homologous neuroblast
database_cross_reference: FlyBase:FBrf0232096

gut-innervating neuron
type: Class
equivalent class: Class
  intersection of: neuron
  intersection of: Restriction
    on property: overlaps
    some values from: gut
subclass of: neuron
subclass of: Restriction
  on property: overlaps
  some values from: gut
definition: Neuron that innervates any part of the gut. These cells include sensory neurons, as well as efferent neurons that terminate on the visceral muscles and the underlying epithelium (Lemaitre and Miguel-Aliaga, 2013). They are chemically and neuroanatomically diverse, with efferent neurons collectively producing several neuropeptides and serotonin (Lemaitre and Miguel-Aliaga, 2013).
contributor: https://orcid.org/0000-0002-1373-1705
date: 2022-03-24T13:50:11Z
database_cross_reference: VFB:FBbt_00052149
has narrow synonym: enteric neuron
has OBO namespace: fly_anatomy.ontology
id: FBbt:00052149
comment: Many recent papers do not count the pharyngeal and labral taste neurons as 'enteric neurons', hence only a narrow synonym.

Axiom
annotated source: gut-innervating neuron
annotated property: definition
annotated target: Neuron that innervates any part of the gut. These cells include sensory neurons, as well as efferent neurons that terminate on the visceral muscles and the underlying epithelium (Lemaitre and Miguel-Aliaga, 2013). They are chemically and neuroanatomically diverse, with efferent neurons collectively producing several neuropeptides and serotonin (Lemaitre and Miguel-Aliaga, 2013).
database_cross_reference: FlyBase:FBrf0223413

adult gut-innervating neuron
type: Class
equivalent class: Class
  intersection of: gut-innervating neuron
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: adult neuron
subclass of: gut-innervating neuron
subclass of: Restriction
  on property: overlaps
  some values from: adult gut
definition: Any gut-innervating neuron of the adult.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2022-03-24T14:13:41Z
database_cross_reference: VFB:FBbt_00052150
has narrow synonym: adult enteric neuron
has OBO namespace: fly_anatomy.ontology
id: FBbt:00052150
comment: Many recent papers do not count the pharyngeal and labral taste neurons as 'enteric neurons', hence only a narrow synonym.

Axiom
annotated source: adult gut-innervating neuron
annotated property: definition
annotated target: Any gut-innervating neuron of the adult.
database_cross_reference: FlyBase:FBrf0223413

larval gut-innervating neuron
type: Class
equivalent class: Class
  intersection of: gut-innervating neuron
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: larval neuron
subclass of: gut-innervating neuron
subclass of: Restriction
  on property: overlaps
  some values from: embryonic/larval gut
definition: Any gut-innervating neuron of the larva.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2022-03-24T14:16:12Z
database_cross_reference: VFB:FBbt_00052151
has narrow synonym: larval enteric neuron
has OBO namespace: fly_anatomy.ontology
id: FBbt:00052151

Axiom
annotated source: larval gut-innervating neuron
annotated property: definition
annotated target: Any gut-innervating neuron of the larva.
database_cross_reference: FlyBase:FBrf0223413

terminal segment
type: Class
subclass of: abdominal segment
definition: One of abdominal segments 8-11 (Campos-Ortega and Hartenstein, 1997; Birkholz et al., 2013). These segments have different patterns of neuroblasts, neurons, musculature and sense organs to more anterior abdominal segments (Campos-Ortega and Hartenstein, 1997; Birkholz et al., 2013).
contributor: https://orcid.org/0000-0002-1373-1705
date: 2022-11-03T13:09:13Z
has exact synonym: posterior abdominal segment
has exact synonym: tail region
has OBO namespace: fly_anatomy.ontology
id: FBbt:00052388

Axiom
annotated source: terminal segment
annotated property: definition
annotated target: One of abdominal segments 8-11 (Campos-Ortega and Hartenstein, 1997; Birkholz et al., 2013). These segments have different patterns of neuroblasts, neurons, musculature and sense organs to more anterior abdominal segments (Campos-Ortega and Hartenstein, 1997; Birkholz et al., 2013).
database_cross_reference: FlyBase:FBrf0041814
database_cross_reference: FlyBase:FBrf0221210

Axiom
annotated source: terminal segment
annotated property: hasExactSynonym
annotated target: tail region
database_cross_reference: FlyBase:FBrf0041814
database_cross_reference: FlyBase:FBrf0221210

larval terminal segment
type: Class
equivalent class: Class
  intersection of: terminal segment
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: larval abdominal segment
subclass of: terminal segment
definition: Any terminal segment of the larva.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2022-11-03T13:18:04Z
has exact synonym: larval posterior abdominal segment
has exact synonym: larval tail region
has exact synonym: tail region of larva
has OBO namespace: fly_anatomy.ontology
id: FBbt:00052389

Axiom
annotated source: larval terminal segment
annotated property: definition
annotated target: Any terminal segment of the larva.
database_cross_reference: FlyBase:FBrf0041814
database_cross_reference: FlyBase:FBrf0221210

Axiom
annotated source: larval terminal segment
annotated property: hasExactSynonym
annotated target: larval tail region
database_cross_reference: FlyBase:FBrf0041814

embryonic terminal segment
type: Class
equivalent class: Class
  intersection of: terminal segment
  intersection of: Restriction
    on property: overlaps
    some values from: embryo
subclass of: embryonic abdominal segment
subclass of: terminal segment
definition: Any terminal segment of the embryo.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2022-11-03T13:19:14Z
has exact synonym: embryonic posterior abdominal segment
has exact synonym: embryonic tail region
has exact synonym: tail region of embryo
has OBO namespace: fly_anatomy.ontology
id: FBbt:00052390

Axiom
annotated source: embryonic terminal segment
annotated property: definition
annotated target: Any terminal segment of the embryo.
database_cross_reference: FlyBase:FBrf0041814
database_cross_reference: FlyBase:FBrf0221210

Axiom
annotated source: embryonic terminal segment
annotated property: hasExactSynonym
annotated target: tail region of embryo
database_cross_reference: FlyBase:FBrf0041814

adult terminal segment
type: Class
equivalent class: Class
  intersection of: terminal segment
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: adult abdominal segment
subclass of: terminal segment
definition: Terminal segment of the adult. These segments collectively contain the genitalia and analia (Rice et al., 2019; McQueen et al., 2022).
contributor: https://orcid.org/0000-0002-1373-1705
date: 2022-11-03T13:21:04Z
has exact synonym: adult posterior abdominal segment
has OBO namespace: fly_anatomy.ontology
id: FBbt:00052391

Axiom
annotated source: adult terminal segment
annotated property: definition
annotated target: Terminal segment of the adult. These segments collectively contain the genitalia and analia (Rice et al., 2019; McQueen et al., 2022).
database_cross_reference: FlyBase:FBrf0244105
database_cross_reference: FlyBase:FBrf0253444

terminal neuroblast
type: Class
equivalent class: Class
  intersection of: neuroblast
  intersection of: Restriction
    on property: part of
    some values from: terminal segment
subclass of: abdominal neuroblast
subclass of: Restriction
  on property: part of
  some values from: terminal segment
definition: Any neuroblast (FBbt:00005146) that is part of some terminal segment (FBbt:00052388).
contributor: https://orcid.org/0000-0002-1373-1705
date: 2022-11-03T13:28:26Z
database_cross_reference: VFB:FBbt_00052392
has OBO namespace: fly_anatomy.ontology
id: FBbt:00052392

Axiom
annotated source: terminal neuroblast
annotated property: definition
annotated target: Any neuroblast (FBbt:00005146) that is part of some terminal segment (FBbt:00052388).
database_cross_reference: FlyBase:FBrf0221210

peripheral sensory precursor cell
type: Class
subclass of: somatic precursor cell
definition: Precursor cell that can give rise to one or more sensory neurons and/or support cells of the periphery.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2023-01-24T15:23:51Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00052556

Axiom
annotated source: peripheral sensory precursor cell
annotated property: definition
annotated target: Precursor cell that can give rise to one or more sensory neurons and/or support cells of the periphery.
database_cross_reference: FlyBase:FBrf0055951
database_cross_reference: FlyBase:FBrf0083795
database_cross_reference: FlyBase:FBrf0132424

segmental subdivision of larval integument
type: Class
equivalent class: Class
  intersection of: segmental subdivision of integument
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: segmental subdivision of integument
subclass of: Restriction
  on property: part of
  some values from: larval integumentary system
definition: Any segmental subdivision of integument of the larva.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2024-01-16T12:05:50Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00052722

Axiom
annotated source: segmental subdivision of larval integument
annotated property: definition
annotated target: Any segmental subdivision of integument of the larva.
database_cross_reference: FBC:Autogenerated

segmental subdivision of adult integument
type: Class
equivalent class: Class
  intersection of: segmental subdivision of integument
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: segmental subdivision of integument
subclass of: Restriction
  on property: part of
  some values from: adult integumentary system
definition: Any segmental subdivision of integument of the adult.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2024-01-16T12:06:43Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00052723

Axiom
annotated source: segmental subdivision of adult integument
annotated property: definition
annotated target: Any segmental subdivision of integument of the adult.
database_cross_reference: FBC:Autogenerated

embryonic pole cell
type: Class
subclass of: cell
subclass of: Restriction
  on property: part of
  some values from: embryo
subclass of: Restriction
  on property: develops from
  some values from: pole bud
definition: Spherical cell that arises at the posterior pole of the stage 3 embryo (Campos-Ortega and Hartenstein, 1997; Okada, 1998). These cells are formed by nuclei that migrate posteriorly to the pole plasm, which they incorporate as cytoplasm as they bud off to become cells (Okada, 1998). At the blastoderm stage, they are mostly found posterior to the posterior midgut anlage and some cells divide up to two times (Technau and Campos-Ortega, 1986; Campos-Ortega and Hartenstein, 1997). They accompany the posterior midgut primordium as it sinks inwards during gastrulation and as it moves anteriorly during germ band extension (Campos-Ortega and Hartenstein, 1997). At stage 10, pole cells exit the posterior midgut primordium and after some further movements, a subset of the original set of pole cells become incorporated into the gonad by stage 16 (Campos-Ortega and Hartenstein, 1997).
contributor: https://orcid.org/0000-0002-1373-1705
date: 2024-12-16T14:46:10Z
has exact synonym: Pole cells that become incorporated into the gonad are the primordial germ cells (FBbt:00000092).
has exact synonym: prospective PGC
has exact synonym: prospective primordial germ cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00053322

Axiom
annotated source: embryonic pole cell
annotated property: definition
annotated target: Spherical cell that arises at the posterior pole of the stage 3 embryo (Campos-Ortega and Hartenstein, 1997; Okada, 1998). These cells are formed by nuclei that migrate posteriorly to the pole plasm, which they incorporate as cytoplasm as they bud off to become cells (Okada, 1998). At the blastoderm stage, they are mostly found posterior to the posterior midgut anlage and some cells divide up to two times (Technau and Campos-Ortega, 1986; Campos-Ortega and Hartenstein, 1997). They accompany the posterior midgut primordium as it sinks inwards during gastrulation and as it moves anteriorly during germ band extension (Campos-Ortega and Hartenstein, 1997). At stage 10, pole cells exit the posterior midgut primordium and after some further movements, a subset of the original set of pole cells become incorporated into the gonad by stage 16 (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0045371
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0101973

Axiom
annotated source: embryonic pole cell
annotated property: hasExactSynonym
annotated target: prospective PGC
database_cross_reference: FlyBase:FBrf0101973

Axiom
annotated source: embryonic pole cell
annotated property: hasExactSynonym
annotated target: prospective primordial germ cell
database_cross_reference: FlyBase:FBrf0101973

integument of adult abdominal segment
type: Class
equivalent class: Class
  intersection of: segmental subdivision of adult integument
  intersection of: Restriction
    on property: part of
    some values from: abdominal segment
subclass of: segmental subdivision of adult integument
subclass of: Restriction
  on property: part of
  some values from: adult abdominal segment
definition: The entire integument of a single adult abdominal segment.
contributor: https://orcid.org/0000-0002-1373-1705
date: 2025-08-01T12:46:07Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00053555

Axiom
annotated source: integument of adult abdominal segment
annotated property: definition
annotated target: The entire integument of a single adult abdominal segment.
database_cross_reference: FlyBase:FBrf0007734

anterior-posterior subdivision of organism
type: Class
subclass of: organism subdivision
definition: Division of an organism along its anterior-posterior axis.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2008-06-30T04:15:23Z
database_cross_reference: UBERON:0011676
has OBO namespace: fly_anatomy.ontology
id: FBbt:00057001
in subset: larval OF

Axiom
annotated source: anterior-posterior subdivision of organism
annotated property: definition
annotated target: Division of an organism along its anterior-posterior axis.
database_cross_reference: https://orcid.org/0000-0002-1373-1705

female germline cell
type: Class
equivalent class: Class
  intersection of: germline cell
  intersection of: Restriction
    on property: has characteristic
    some values from: PATO_0060003
subclass of: germline cell
subclass of: female-specific anatomical entity
subclass of: Restriction
  on property: expresses
  some values from: FBgn0283442
definition: Cell that develops into or is itself an egg.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2008-06-16T03:09:39Z
database_cross_reference: CL:0000025
has exact synonym: female germ cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00057012
in subset: scrnaseq slim
comment: Can be identified by expression of vasa (Rust et al., 2020).

Axiom
annotated source: female germline cell
annotated property: definition
annotated target: Cell that develops into or is itself an egg.
database_cross_reference: FlyBase:FBrf0247148
database_cross_reference: https://orcid.org/0000-0001-5948-3092

Axiom
annotated source: female germline cell
annotated property: hasExactSynonym
annotated target: female germ cell
database_cross_reference: FlyBase:FBrf0247148

somatic muscle
type: Class
subclass of: multicellular structure
definition: A multicellular structure made of one or several myofibers associated with tendon cells that attach the myofiber(s) to the exoskeleton or other organs.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2022-06-23T16:54:03Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058111
in subset: cur

Axiom
annotated source: somatic muscle
annotated property: definition
annotated target: A multicellular structure made of one or several myofibers associated with tendon cells that attach the myofiber(s) to the exoskeleton or other organs.
database_cross_reference: FlyBase:FBrf0211520

adult hemocyte
type: Class
equivalent class: Class
  intersection of: hemocyte
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: hemocyte
subclass of: Restriction
  on property: part of
  some values from: adult circulatory system
definition: Hemocyte of the adult organism. These cells all arise during embryonic and larval development and persist through metamorphosis and adult life (Holz et al., 2003; Sanchez Bosch et al., 2019).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-05-26T15:07:24Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058143
in subset: cur

Axiom
annotated source: adult hemocyte
annotated property: definition
annotated target: Hemocyte of the adult organism. These cells all arise during embryonic and larval development and persist through metamorphosis and adult life (Holz et al., 2003; Sanchez Bosch et al., 2019).
database_cross_reference: FlyBase:FBrf0162082
database_cross_reference: FlyBase:FBrf0244363

adult plasmatocyte
type: Class
equivalent class: Class
  intersection of: plasmatocyte
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: mesodermal derivative
subclass of: adult hemocyte
subclass of: plasmatocyte
subclass of: Restriction
  on property: develops from
  some values from: embryonic/larval plasmatocyte
definition: Plasmatocyte of the adult. These cells all originate during embryonic and larval development. They do not divide in the adult and their numbers decrease slowly throughout adult life (Honti et al., 2014).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-05-26T15:17:34Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058144
in subset: cur

Axiom
annotated source: adult plasmatocyte
annotated property: definition
annotated target: Plasmatocyte of the adult. These cells all originate during embryonic and larval development. They do not divide in the adult and their numbers decrease slowly throughout adult life (Honti et al., 2014).
database_cross_reference: FlyBase:FBrf0223115

plasmatocyte
type: Class
subclass of: hemocyte
subclass of: Restriction
  on property: expresses
  some values from: FBgn0259896
definition: Phagocytic hemocyte. These cells represent about 90% of all hemocytes (Lanot et al., 2001). They are responsible for the engulfment of small particles, microbes and apoptotic tissues debris (Honti et al., 2014) and for the secretion of antimicrobial peptides and opsonins (Cattenoz et al., 2021). They also contribute to the production and secretion of proteins of the hemolymph, along with fat body cells (Cattenoz et al., 2021). They express Nimrod C1 (Kurucz et al., 2007).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-05-26T15:18:53Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058145
in subset: cur

Axiom
annotated source: plasmatocyte
annotated property: definition
annotated target: Phagocytic hemocyte. These cells represent about 90% of all hemocytes (Lanot et al., 2001). They are responsible for the engulfment of small particles, microbes and apoptotic tissues debris (Honti et al., 2014) and for the secretion of antimicrobial peptides and opsonins (Cattenoz et al., 2021). They also contribute to the production and secretion of proteins of the hemolymph, along with fat body cells (Cattenoz et al., 2021). They express Nimrod C1 (Kurucz et al., 2007).
database_cross_reference: FlyBase:FBrf0134542
database_cross_reference: FlyBase:FBrf0195027
database_cross_reference: FlyBase:FBrf0223115
database_cross_reference: FlyBase:FBrf0248467

adult crystal cell
type: Class
equivalent class: Class
  intersection of: crystal cell
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: mesodermal derivative
subclass of: adult hemocyte
subclass of: crystal cell
subclass of: Restriction
  on property: develops from
  some values from: embryonic/larval crystal cell
definition: Crystal cell of the adult. Originating from the embryo and the larva, these cells persist in small numbers in the adult (Honti et al., 2014; Gold and Bruckner, 2015).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-05-26T15:20:03Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058146
in subset: cur

Axiom
annotated source: adult crystal cell
annotated property: definition
annotated target: Crystal cell of the adult. Originating from the embryo and the larva, these cells persist in small numbers in the adult (Honti et al., 2014; Gold and Bruckner, 2015).
database_cross_reference: FlyBase:FBrf0223115
database_cross_reference: FlyBase:FBrf0232226

crystal cell
type: Class
subclass of: hemocyte
subclass of: Restriction
  on property: expresses
  some values from: FBgn0033367
subclass of: Restriction
  on property: expresses
  some values from: FBgn0283437
definition: Melanizing hemocyte. It has roughly the same size as a plasmatocyte but is distinguishable by its crystal inclusions of phenoloxidases (encoded by PPO1 and PPO2) that are necessary for the synthesis of melanin as part of the antimicrobial immune reaction (Wood and Jacinto, 2007; Honti et al., 2014; Cattenoz et al., 2020).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-05-26T15:20:21Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058147
in subset: cur

Axiom
annotated source: crystal cell
annotated property: definition
annotated target: Melanizing hemocyte. It has roughly the same size as a plasmatocyte but is distinguishable by its crystal inclusions of phenoloxidases (encoded by PPO1 and PPO2) that are necessary for the synthesis of melanin as part of the antimicrobial immune reaction (Wood and Jacinto, 2007; Honti et al., 2014; Cattenoz et al., 2020).
database_cross_reference: FlyBase:FBrf0202336
database_cross_reference: FlyBase:FBrf0223115
database_cross_reference: FlyBase:FBrf0245988

adult muscle cell
type: Class
equivalent class: Class
  intersection of: muscle cell
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: muscle cell
subclass of: Restriction
  on property: part of
  some values from: adult muscle system
definition: Any muscle cell of the adult.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-09-06T09:13:41Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058230
in subset: cur

Axiom
annotated source: adult muscle cell
annotated property: definition
annotated target: Any muscle cell of the adult.
database_cross_reference: FBC:Autogenerated

larval muscle cell
type: Class
equivalent class: Class
  intersection of: muscle cell
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: muscle cell
subclass of: Restriction
  on property: part of
  some values from: larval muscle system
definition: Any muscle cell of the larva.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-09-06T09:15:38Z
has exact synonym: embryonic/larval muscle cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058231
in subset: cur

Axiom
annotated source: larval muscle cell
annotated property: definition
annotated target: Any muscle cell of the larva.
database_cross_reference: FBC:Autogenerated

adult epithelial cell
type: Class
equivalent class: Class
  intersection of: epithelial cell
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: epithelial cell
subclass of: Restriction
  on property: part of
  some values from: adult
definition: Any epithelial cell of the adult.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-09-27T11:38:48Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058238
in subset: cur

Axiom
annotated source: adult epithelial cell
annotated property: definition
annotated target: Any epithelial cell of the adult.
database_cross_reference: FBC:Autogenerated

larval epithelial cell
type: Class
equivalent class: Class
  intersection of: epithelial cell
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: epithelial cell
subclass of: Restriction
  on property: part of
  some values from: larva
definition: Any epithelial cell of the larva.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-09-27T11:40:51Z
has exact synonym: embryonic/larval epithelial cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058239
in subset: cur

Axiom
annotated source: larval epithelial cell
annotated property: definition
annotated target: Any epithelial cell of the larva.
database_cross_reference: FBC:Autogenerated

adult epidermal cell
type: Class
equivalent class: Class
  intersection of: epidermal cell
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: epidermal cell
subclass of: adult epithelial cell
subclass of: Restriction
  on property: part of
  some values from: adult epidermis
definition: Any epidermal cell of the adult.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-09-27T11:58:54Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058242
in subset: cur

Axiom
annotated source: adult epidermal cell
annotated property: definition
annotated target: Any epidermal cell of the adult.
database_cross_reference: FBC:Autogenerated

embryonic/larval epidermal cell
type: Class
equivalent class: Class
  intersection of: epidermal cell
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: epidermal cell
subclass of: larval epithelial cell
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval epidermis
definition: Any epidermal cell of the larva.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-09-27T12:01:09Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058243
in subset: cur

Axiom
annotated source: embryonic/larval epidermal cell
annotated property: definition
annotated target: Any epidermal cell of the larva.
database_cross_reference: FBC:Autogenerated

adult PNS glial cell
type: Class
equivalent class: Class
  intersection of: PNS glial cell
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: PNS glial cell
subclass of: adult glial cell
subclass of: Restriction
  on property: part of
  some values from: adult peripheral nervous system
definition: Any PNS glial cell of the adult.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-09-27T16:42:03Z
database_cross_reference: VFB:FBbt_00058258
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058258
in subset: cur

Axiom
annotated source: adult PNS glial cell
annotated property: definition
annotated target: Any PNS glial cell of the adult.
database_cross_reference: FBC:Autogenerated

larval PNS glial cell
type: Class
equivalent class: Class
  intersection of: PNS glial cell
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: larval glial cell
subclass of: PNS glial cell
subclass of: Restriction
  on property: part of
  some values from: larval peripheral nervous system
definition: Any PNS glial cell of the larva.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-09-27T16:42:39Z
database_cross_reference: VFB:FBbt_00058259
has exact synonym: embryonic/larval PNS glial cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058259
in subset: cur

Axiom
annotated source: larval PNS glial cell
annotated property: definition
annotated target: Any PNS glial cell of the larva.
database_cross_reference: FBC:Autogenerated

midgut muscle cell
type: Class
equivalent class: Class
  intersection of: visceral muscle cell
  intersection of: Restriction
    on property: part of
    some values from: midgut
subclass of: visceral muscle cell
subclass of: Restriction
  on property: part of
  some values from: midgut
definition: Any visceral muscle cell (FBbt:00005070) that is part of some midgut (FBbt:00005383).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-09-30T11:08:39Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058265
in subset: cur

Axiom
annotated source: midgut muscle cell
annotated property: definition
annotated target: Any visceral muscle cell (FBbt:00005070) that is part of some midgut (FBbt:00005383).
database_cross_reference: FBC:Autogenerated

foregut muscle cell
type: Class
equivalent class: Class
  intersection of: visceral muscle cell
  intersection of: Restriction
    on property: part of
    some values from: foregut
subclass of: visceral muscle cell
subclass of: Restriction
  on property: part of
  some values from: foregut
definition: Any visceral muscle cell (FBbt:00005070) that is part of some foregut (FBbt:00005379).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2021-09-30T11:09:07Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058266
in subset: cur

Axiom
annotated source: foregut muscle cell
annotated property: definition
annotated target: Any visceral muscle cell (FBbt:00005070) that is part of some foregut (FBbt:00005379).
database_cross_reference: FBC:Autogenerated

larval somatic muscle
type: Class
equivalent class: Class
  intersection of: somatic muscle
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: somatic muscle
subclass of: Restriction
  on property: part of
  some values from: larval muscle system
definition: Somatic muscle of the late embryo (stage 17+) or larva that is part of the fully developed larval musculature.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2022-07-05T13:30:44Z
has exact synonym: embryonic/larval skeletal muscle
has exact synonym: embryonic/larval somatic muscle
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058297
in subset: cur

Axiom
annotated source: larval somatic muscle
annotated property: definition
annotated target: Somatic muscle of the late embryo (stage 17+) or larva that is part of the fully developed larval musculature.
database_cross_reference: FlyBase:FBrf0064803

adult somatic muscle
type: Class
equivalent class: Class
  intersection of: somatic muscle
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: somatic muscle
subclass of: Restriction
  on property: part of
  some values from: adult muscle system
definition: A muscle attached to the inner surface of the adult body wall, extending between articulated or flexibly joined areas, that serves to move the parts of the exoskeleton.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2022-07-05T13:30:44Z
has exact synonym: adult skeletal muscle
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058784
in subset: cur

Axiom
annotated source: adult somatic muscle
annotated property: definition
annotated target: A muscle attached to the inner surface of the adult body wall, extending between articulated or flexibly joined areas, that serves to move the parts of the exoskeleton.
database_cross_reference: FlyBase:FBrf0007735

adult somatic muscle of abdomen
type: Class
equivalent class: Class
  intersection of: adult somatic muscle
  intersection of: Restriction
    on property: part of
    some values from: adult abdomen
subclass of: adult somatic muscle
subclass of: Restriction
  on property: part of
  some values from: adult abdomen
definition: Somatic muscle that is part of the adult abdomen.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2022-07-05T13:30:44Z
has exact synonym: skeletal muscle of abdomen
has OBO namespace: fly_anatomy.ontology
id: FBbt:00058966
in subset: cur

Axiom
annotated source: adult somatic muscle of abdomen
annotated property: definition
annotated target: Somatic muscle that is part of the adult abdomen.
database_cross_reference: FlyBase:FBrf0007735
database_cross_reference: FlyBase:FBrf0064793
database_cross_reference: FlyBase:FBrf0192609
database_cross_reference: FlyBase:FBrf0193310

female abdominal somatic muscle
type: Class
equivalent class: Class
  intersection of: adult somatic muscle of abdomen
  intersection of: Restriction
    on property: has characteristic
    some values from: PATO_0060003
subclass of: female-specific anatomical entity
subclass of: adult somatic muscle of abdomen
definition: Abdominal skeletal muscle that is specific to females.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2022-07-05T13:30:44Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059018
in subset: cur

Axiom
annotated source: female abdominal somatic muscle
annotated property: definition
annotated target: Abdominal skeletal muscle that is specific to females.
database_cross_reference: FlyBase:FBrf0007734

embryonic somatic muscle
type: Class
subclass of: somatic muscle
subclass of: Restriction
  on property: part of
  some values from: somatic muscle primordium
definition: Somatic muscle of the embryo, found prior to the fully-formed larval muscle pattern visible at stage 17. At stage 12, myoblasts of the somatic musculature are found in the superficial layer of the mesoderm, these differentiate and fuse to form muscle fibers by the end of stage 13. Between stages 13 and 17, the muscle fibers insert at apodemes formed by the epidermis and stretch during dorsal closure and head involution.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2022-07-05T13:30:44Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059033
in subset: cur

Axiom
annotated source: embryonic somatic muscle
annotated property: definition
annotated target: Somatic muscle of the embryo, found prior to the fully-formed larval muscle pattern visible at stage 17. At stage 12, myoblasts of the somatic musculature are found in the superficial layer of the mesoderm, these differentiate and fuse to form muscle fibers by the end of stage 13. Between stages 13 and 17, the muscle fibers insert at apodemes formed by the epidermis and stretch during dorsal closure and head involution.
database_cross_reference: FlyBase:FBrf0064803

cyst cell of female germline 2-cell cyst
type: Class
equivalent class: Class
  intersection of: cyst cell of ovary
  intersection of: Restriction
    on property: part of
    some values from: female germline 2-cell cyst
subclass of: cyst cell of ovary
subclass of: Restriction
  on property: part of
  some values from: female germline 2-cell cyst
definition: One of the two cyst cells that make up a 2-cell female germline cyst, resulting from the first division of a cystoblast (Hinnant et al., 2020).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2022-08-30T16:22:58Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059157
in subset: cur

Axiom
annotated source: cyst cell of female germline 2-cell cyst
annotated property: definition
annotated target: One of the two cyst cells that make up a 2-cell female germline cyst, resulting from the first division of a cystoblast (Hinnant et al., 2020).
database_cross_reference: FlyBase:FBrf0244981

cyst cell of female germline 4-cell cyst
type: Class
equivalent class: Class
  intersection of: cyst cell of ovary
  intersection of: Restriction
    on property: part of
    some values from: female germline 4-cell cyst
subclass of: cyst cell of ovary
subclass of: Restriction
  on property: part of
  some values from: female germline 4-cell cyst
subclass of: Restriction
  on property: develops from
  some values from: cyst cell of female germline 2-cell cyst
definition: One of the four cyst cells that make up a 4-cell female germline cyst, resulting from the second round of cystoblast division (Hinnant et al., 2020).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2022-08-30T16:25:39Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059158
in subset: cur

Axiom
annotated source: cyst cell of female germline 4-cell cyst
annotated property: definition
annotated target: One of the four cyst cells that make up a 4-cell female germline cyst, resulting from the second round of cystoblast division (Hinnant et al., 2020).
database_cross_reference: FlyBase:FBrf0244981

cyst cell of female germline 8-cell cyst
type: Class
equivalent class: Class
  intersection of: cyst cell of ovary
  intersection of: Restriction
    on property: part of
    some values from: female germline 8-cell cyst
subclass of: cyst cell of ovary
subclass of: Restriction
  on property: part of
  some values from: female germline 8-cell cyst
subclass of: Restriction
  on property: develops from
  some values from: cyst cell of female germline 4-cell cyst
definition: One of the eight cyst cells that make up a 8-cell female germline cyst, resulting from the third round of cystoblast division (Hinnant et al., 2020).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2022-08-30T16:26:38Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059159
in subset: cur

Axiom
annotated source: cyst cell of female germline 8-cell cyst
annotated property: definition
annotated target: One of the eight cyst cells that make up a 8-cell female germline cyst, resulting from the third round of cystoblast division (Hinnant et al., 2020).
database_cross_reference: FlyBase:FBrf0244981

cyst cell of female germline 16-cell cyst
type: Class
equivalent class: Class
  intersection of: cyst cell of ovary
  intersection of: Restriction
    on property: part of
    some values from: female germline 16-cell cyst
subclass of: cyst cell of ovary
subclass of: Restriction
  on property: part of
  some values from: female germline 16-cell cyst
subclass of: Restriction
  on property: develops from
  some values from: cyst cell of female germline 8-cell cyst
definition: One of the 16 cyst cells that make up a female germline 16-cell cyst, resulting from the fourth and last round of cystoblast division (Hinnant et al., 2020).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2022-08-30T16:50:20Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059160
in subset: cur

Axiom
annotated source: cyst cell of female germline 16-cell cyst
annotated property: definition
annotated target: One of the 16 cyst cells that make up a female germline 16-cell cyst, resulting from the fourth and last round of cystoblast division (Hinnant et al., 2020).
database_cross_reference: FlyBase:FBrf0244981

adult postcephalic region
type: Class
subclass of: organism subdivision
subclass of: Restriction
  on property: part of
  some values from: adult
definition: The part of the adult Drosophila organism that encompasses the whole body except the head (Li et al., 2022).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2023-03-15T19:10:38Z
has narrow synonym: adult trunk
has OBO namespace: fly_anatomy.ontology
has related synonym: adult body
id: FBbt:00059181
in subset: cur

Axiom
annotated source: adult postcephalic region
annotated property: definition
annotated target: The part of the adult Drosophila organism that encompasses the whole body except the head (Li et al., 2022).
database_cross_reference: FlyBase:FBrf0252876

Axiom
annotated source: adult postcephalic region
annotated property: hasNarrowSynonym
annotated target: adult trunk
database_cross_reference: FlyBase:FBrf0055836

CNS neuron
type: Class
equivalent class: Class
  intersection of: neuron
  intersection of: Restriction
    on property: has soma location
    some values from: central nervous system
subclass of: neuron
subclass of: Restriction
  on property: has soma location
  some values from: central nervous system
definition: Any neuron that has its soma in the central nervous system.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2023-11-09T16:06:03Z
database_cross_reference: VFB:FBbt_00059271
has exact synonym: central nervous system neuron
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059271
in subset: cur

Axiom
annotated source: CNS neuron
annotated property: definition
annotated target: Any neuron that has its soma in the central nervous system.
database_cross_reference: https://orcid.org/0000-0002-6095-8718

PNS neuron
type: Class
equivalent class: Class
  intersection of: neuron
  intersection of: Restriction
    on property: has soma location
    some values from: peripheral nervous system
subclass of: neuron
subclass of: Restriction
  on property: has soma location
  some values from: peripheral nervous system
definition: Any neuron that has its soma in the peripheral nervous system.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2023-11-09T16:08:28Z
database_cross_reference: VFB:FBbt_00059272
has exact synonym: peripheral nervous system neuron
has OBO namespace: fly_anatomy.ontology
has related synonym: afferent neuron
id: FBbt:00059272
in subset: cur

Axiom
annotated source: PNS neuron
annotated property: definition
annotated target: Any neuron that has its soma in the peripheral nervous system.
database_cross_reference: https://orcid.org/0000-0002-6095-8718

Axiom
annotated source: PNS neuron
annotated property: hasRelatedSynonym
annotated target: afferent neuron
database_cross_reference: FlyBase:FBrf0260546

larval CNS neuron
type: Class
equivalent class: Class
  intersection of: CNS neuron
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: larval neuron
subclass of: CNS neuron
subclass of: Restriction
  on property: has soma location
  some values from: larval central nervous system
definition: Any neuron that has its soma in the late embryonic or larval central nervous system.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2023-11-09T16:11:09Z
database_cross_reference: VFB:FBbt_00059273
has exact synonym: embryonic/larval central nervous system neuron
has exact synonym: larval central nervous system neuron
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059273
in subset: cur

Axiom
annotated source: larval CNS neuron
annotated property: definition
annotated target: Any neuron that has its soma in the late embryonic or larval central nervous system.
database_cross_reference: https://orcid.org/0000-0002-6095-8718

adult CNS neuron
type: Class
equivalent class: Class
  intersection of: CNS neuron
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: adult neuron
subclass of: CNS neuron
subclass of: Restriction
  on property: has soma location
  some values from: adult central nervous system
definition: Any neuron that has its soma in the adult central nervous system.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2023-11-09T16:11:42Z
database_cross_reference: VFB:FBbt_00059274
has exact synonym: adult central nervous system neuron
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059274
in subset: cur

Axiom
annotated source: adult CNS neuron
annotated property: definition
annotated target: Any neuron that has its soma in the adult central nervous system.
database_cross_reference: https://orcid.org/0000-0002-6095-8718

larval PNS neuron
type: Class
equivalent class: Class
  intersection of: PNS neuron
  intersection of: Restriction
    on property: overlaps
    some values from: larva
subclass of: larval neuron
subclass of: PNS neuron
subclass of: Restriction
  on property: has soma location
  some values from: larval peripheral nervous system
definition: Any neuron that has its soma in the late embryonic or larval peripheral nervous system.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2023-11-09T16:12:15Z
database_cross_reference: VFB:FBbt_00059275
has exact synonym: embryonic/larval peripheral nervous system neuron
has exact synonym: larval peripheral nervous system neuron
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059275
in subset: cur

Axiom
annotated source: larval PNS neuron
annotated property: definition
annotated target: Any neuron that has its soma in the late embryonic or larval peripheral nervous system.
database_cross_reference: https://orcid.org/0000-0002-6095-8718

adult PNS neuron
type: Class
equivalent class: Class
  intersection of: PNS neuron
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: adult neuron
subclass of: PNS neuron
subclass of: Restriction
  on property: has soma location
  some values from: adult peripheral nervous system
definition: Any neuron that has its soma in the adult peripheral nervous system.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2023-11-09T16:12:44Z
database_cross_reference: VFB:FBbt_00059276
has exact synonym: adult peripheral nervous system neuron
has OBO namespace: fly_anatomy.ontology
has related synonym: adult afferent neuron
id: FBbt:00059276
in subset: cur

Axiom
annotated source: adult PNS neuron
annotated property: definition
annotated target: Any neuron that has its soma in the adult peripheral nervous system.
database_cross_reference: https://orcid.org/0000-0002-6095-8718

Axiom
annotated source: adult PNS neuron
annotated property: hasRelatedSynonym
annotated target: adult afferent neuron
database_cross_reference: FlyBase:FBrf0260546

somatic cell of ectoderm anlage
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: ectoderm anlage
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: ectoderm anlage
definition: A(n) somatic cell that is part of a(n) ectoderm anlage.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059301

Axiom
annotated source: somatic cell of ectoderm anlage
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) ectoderm anlage.
database_cross_reference: FBC:Autogenerated

somatic cell of endoderm anlage
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: endoderm anlage
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: endoderm anlage
definition: A(n) somatic cell that is part of a(n) endoderm anlage.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059302

Axiom
annotated source: somatic cell of endoderm anlage
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) endoderm anlage.
database_cross_reference: FBC:Autogenerated

somatic cell of mesoderm anlage
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: mesoderm anlage
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: mesoderm anlage
definition: A(n) somatic cell that is part of a(n) mesoderm anlage.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059303

Axiom
annotated source: somatic cell of mesoderm anlage
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) mesoderm anlage.
database_cross_reference: FBC:Autogenerated

somatic cell of trunk mesoderm anlage
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: trunk mesoderm anlage
subclass of: somatic cell of mesoderm anlage
subclass of: Restriction
  on property: part of
  some values from: trunk mesoderm anlage
definition: A(n) somatic cell that is part of a(n) trunk mesoderm anlage.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059304

Axiom
annotated source: somatic cell of trunk mesoderm anlage
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) trunk mesoderm anlage.
database_cross_reference: FBC:Autogenerated

somatic cell of ectoderm
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: ectoderm
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: ectoderm
definition: A(n) somatic cell that is part of a(n) ectoderm.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has exact synonym: ectodermal cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059305

Axiom
annotated source: somatic cell of ectoderm
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) ectoderm.
database_cross_reference: FBC:Autogenerated

somatic cell of endoderm
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: endoderm
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: endoderm
definition: A(n) somatic cell that is part of a(n) endoderm.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has exact synonym: endodermal cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059306

Axiom
annotated source: somatic cell of endoderm
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) endoderm.
database_cross_reference: FBC:Autogenerated

somatic cell of mesoderm
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: mesoderm
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: mesoderm
definition: A(n) somatic cell that is part of a(n) mesoderm.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has exact synonym: mesodermal cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059307

Axiom
annotated source: somatic cell of mesoderm
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) mesoderm.
database_cross_reference: FBC:Autogenerated

somatic cell of somatic trunk mesoderm
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: somatic trunk mesoderm
subclass of: somatic cell of trunk mesoderm
subclass of: Restriction
  on property: part of
  some values from: somatic trunk mesoderm
definition: A(n) somatic cell that is part of a(n) somatic trunk mesoderm.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059308

Axiom
annotated source: somatic cell of somatic trunk mesoderm
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) somatic trunk mesoderm.
database_cross_reference: FBC:Autogenerated

somatic cell of trunk mesoderm
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: trunk mesoderm
subclass of: somatic cell of mesoderm
subclass of: Restriction
  on property: part of
  some values from: trunk mesoderm
definition: A(n) somatic cell that is part of a(n) trunk mesoderm.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059310

Axiom
annotated source: somatic cell of trunk mesoderm
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) trunk mesoderm.
database_cross_reference: FBC:Autogenerated

somatic cell of embryonic terminal segment
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: embryonic terminal segment
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: embryonic terminal segment
definition: A(n) somatic cell that is part of a(n) embryonic terminal segment.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059312

Axiom
annotated source: somatic cell of embryonic terminal segment
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) embryonic terminal segment.
database_cross_reference: FBC:Autogenerated

somatic cell of stage 5 embryo
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: stage 5 embryo
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: stage 5 embryo
definition: A(n) somatic cell that is part of a(n) stage 5 embryo.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has exact synonym: blastoderm cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059313

Axiom
annotated source: somatic cell of stage 5 embryo
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) stage 5 embryo.
database_cross_reference: FBC:Autogenerated

somatic cell of amnioserosa
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: amnioserosa
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: amnioserosa
definition: A(n) somatic cell that is part of a(n) amnioserosa.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059314

Axiom
annotated source: somatic cell of amnioserosa
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) amnioserosa.
database_cross_reference: FBC:Autogenerated

somatic cell of embryonic/larval hindgut
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: embryonic/larval hindgut
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval hindgut
definition: A(n) somatic cell that is part of a(n) embryonic/larval hindgut.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059315

Axiom
annotated source: somatic cell of embryonic/larval hindgut
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) embryonic/larval hindgut.
database_cross_reference: FBC:Autogenerated

somatic cell of embryonic/larval proventriculus
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: embryonic/larval proventriculus
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval proventriculus
definition: A(n) somatic cell that is part of a(n) embryonic/larval proventriculus.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059316

Axiom
annotated source: somatic cell of embryonic/larval proventriculus
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) embryonic/larval proventriculus.
database_cross_reference: FBC:Autogenerated

somatic cell of embryonic/larval salivary gland
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: embryonic/larval salivary gland
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval salivary gland
definition: A(n) somatic cell that is part of a(n) embryonic/larval salivary gland.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059317

Axiom
annotated source: somatic cell of embryonic/larval salivary gland
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) embryonic/larval salivary gland.
database_cross_reference: FBC:Autogenerated

somatic cell of inclusive hindgut primordium
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: inclusive hindgut primordium
subclass of: somatic cell of trunk ectoderm
subclass of: Restriction
  on property: part of
  some values from: inclusive hindgut primordium
definition: A(n) somatic cell that is part of a(n) inclusive hindgut primordium.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059318

Axiom
annotated source: somatic cell of inclusive hindgut primordium
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) inclusive hindgut primordium.
database_cross_reference: FBC:Autogenerated

somatic cell of embryonic/larval midgut primordium
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: embryonic/larval midgut primordium
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval midgut primordium
definition: A(n) somatic cell that is part of a(n) embryonic/larval midgut primordium.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059319

Axiom
annotated source: somatic cell of embryonic/larval midgut primordium
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) embryonic/larval midgut primordium.
database_cross_reference: FBC:Autogenerated

somatic cell of midline primordium
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: midline primordium
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: midline primordium
definition: A(n) somatic cell that is part of a(n) midline primordium.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059320

Axiom
annotated source: somatic cell of midline primordium
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) midline primordium.
database_cross_reference: FBC:Autogenerated

somatic cell of salivary gland body primordium
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: salivary gland body primordium
subclass of: somatic cell of presumptive embryonic salivary gland
subclass of: Restriction
  on property: part of
  some values from: salivary gland body primordium
definition: A(n) somatic cell that is part of a(n) salivary gland body primordium.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059321

Axiom
annotated source: somatic cell of salivary gland body primordium
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) salivary gland body primordium.
database_cross_reference: FBC:Autogenerated

somatic cell of presumptive embryonic salivary gland
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: presumptive embryonic salivary gland
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: presumptive embryonic salivary gland
definition: A(n) somatic cell that is part of a(n) presumptive embryonic salivary gland.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2024-04-24T15:19:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059322

Axiom
annotated source: somatic cell of presumptive embryonic salivary gland
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) presumptive embryonic salivary gland.
database_cross_reference: FBC:Autogenerated

somatic cell of trunk ectoderm
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: trunk ectoderm
subclass of: somatic cell of ectoderm
subclass of: Restriction
  on property: part of
  some values from: trunk ectoderm
definition: A(n) somatic cell that is part of a(n) trunk ectoderm.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2025-01-16T16:51:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059340

Axiom
annotated source: somatic cell of trunk ectoderm
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) trunk ectoderm.
database_cross_reference: FBC:Autogenerated

somatic cell of dorsal ectoderm
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: dorsal ectoderm
subclass of: somatic cell of trunk ectoderm
subclass of: Restriction
  on property: part of
  some values from: dorsal ectoderm
definition: A(n) somatic cell that is part of a(n) dorsal ectoderm.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2025-01-16T16:51:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059341

Axiom
annotated source: somatic cell of dorsal ectoderm
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) dorsal ectoderm.
database_cross_reference: FBC:Autogenerated

somatic cell of anterior ectoderm
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: anterior ectoderm
subclass of: somatic cell of ectoderm
subclass of: Restriction
  on property: part of
  some values from: anterior ectoderm
definition: A(n) somatic cell that is part of a(n) anterior ectoderm.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2025-01-16T16:51:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059342

Axiom
annotated source: somatic cell of anterior ectoderm
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) anterior ectoderm.
database_cross_reference: FBC:Autogenerated

somatic cell of Malpighian tubule primordium
type: Class
equivalent class: Class
  intersection of: somatic cell
  intersection of: Restriction
    on property: part of
    some values from: Malpighian tubule primordium
subclass of: somatic cell
subclass of: Restriction
  on property: part of
  some values from: Malpighian tubule primordium
definition: A(n) somatic cell that is part of a(n) Malpighian tubule primordium.
contributor: https://orcid.org/0000-0002-6095-8718
date: 2025-01-16T16:51:10Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059349

Axiom
annotated source: somatic cell of Malpighian tubule primordium
annotated property: definition
annotated target: A(n) somatic cell that is part of a(n) Malpighian tubule primordium.
database_cross_reference: FBC:Autogenerated

larval foregut epithelial cell
type: Class
equivalent class: Class
  intersection of: epithelial cell
  intersection of: Restriction
    on property: part of
    some values from: embryonic/larval foregut
subclass of: larval epithelial cell
subclass of: Restriction
  on property: part of
  some values from: embryonic/larval foregut
definition: Any epithelial cell (FBbt:00000124) that is part of some embryonic/larval foregut (FBbt:00001862).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2025-01-16T18:35:21Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059356
in subset: cur

Axiom
annotated source: larval foregut epithelial cell
annotated property: definition
annotated target: Any epithelial cell (FBbt:00000124) that is part of some embryonic/larval foregut (FBbt:00001862).
database_cross_reference: FBC:Autogenerated

larval hindgut epithelial cell
type: Class
equivalent class: Class
  intersection of: epithelial cell
  intersection of: Restriction
    on property: part of
    some values from: embryonic/larval hindgut
subclass of: larval epithelial cell
subclass of: somatic cell of embryonic/larval hindgut
definition: Any epithelial cell (FBbt:00000124) that is part of some embryonic/larval hindgut (FBbt:00001891).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2025-01-16T18:36:11Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00059357
in subset: cur

Axiom
annotated source: larval hindgut epithelial cell
annotated property: definition
annotated target: Any epithelial cell (FBbt:00000124) that is part of some embryonic/larval hindgut (FBbt:00001891).
database_cross_reference: FBC:Autogenerated

multicellular structure
type: Class
subclass of: anatomical structure
definition: Anatomical structure that has multiple cells as parts.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2010-11-02T02:25:04Z
database_cross_reference: UBERON:0010000
has OBO namespace: fly_anatomy.ontology
id: FBbt:00100313

Axiom
annotated source: multicellular structure
annotated property: definition
annotated target: Anatomical structure that has multiple cells as parts.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

gut section
type: Class
subclass of: organ system subdivision
subclass of: Restriction
  on property: part of
  some values from: gut
definition: A subdivision of the gut along its long axis.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2010-11-02T05:21:35Z
database_cross_reference: UBERON:0004921
has OBO namespace: fly_anatomy.ontology
id: FBbt:00100315

Axiom
annotated source: gut section
annotated property: definition
annotated target: A subdivision of the gut along its long axis.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

gland
type: Class
subclass of: BFO_0000040
subclass of: multicellular structure
subclass of: Restriction
  on property: capable of
  some values from: GO_0046903
definition: Structure that produces and releases a chemical secretion. Exocrine glands release to the surface of the body or into a lumen, whereas endocrine glands release into the circulation.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2010-11-02T05:39:45Z
database_cross_reference: UBERON:0002530
has OBO namespace: fly_anatomy.ontology
id: FBbt:00100317

Axiom
annotated source: gland
annotated property: definition
annotated target: Structure that produces and releases a chemical secretion. Exocrine glands release to the surface of the body or into a lumen, whereas endocrine glands release into the circulation.
database_cross_reference: doi:10.1016/j.mce.2023.112108
database_cross_reference: doi:10.1146/annurev-ento-011624-013339

somatic cell
type: Class
subclass of: cell
definition: Any cell that is not a germ cell (Okada, 1998). During development, somatic cells differentiate into various types, but they do not persist beyond the lifespan of a single organism (Okada, 1998).
contributor: https://orcid.org/0000-0002-7073-9172
date: 2010-11-04T08:35:02Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00100318

Axiom
annotated source: somatic cell
annotated property: definition
annotated target: Any cell that is not a germ cell (Okada, 1998). During development, somatic cells differentiate into various types, but they do not persist beyond the lifespan of a single organism (Okada, 1998).
database_cross_reference: FlyBase:FBrf0101973

adult alimentary canal
type: Class
subclass of: alimentary canal
subclass of: Restriction
  on property: part of
  some values from: adult digestive system
definition: The entire adult anatomical structure through which food and its digestion products are ingested, digested and excreted. At its anterior and posterior ends this includes structures that are not foregut or hindgut.
has OBO namespace: fly_anatomy.ontology
id: FBbt:00100322
in subset: cur

Axiom
annotated source: adult alimentary canal
annotated property: definition
annotated target: The entire adult anatomical structure through which food and its digestion products are ingested, digested and excreted. At its anterior and posterior ends this includes structures that are not foregut or hindgut.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

embryonic/larval alimentary canal
type: Class
subclass of: alimentary canal
subclass of: Restriction
  on property: part of
  some values from: larval digestive system
definition: The entire embryonic/larval anatomical structure through which food and its digestion products are ingested, digested and excreted. At its anterior and posterior ends this includes structures that are not foregut or hindgut.
contributor: https://orcid.org/0000-0002-7073-9172
date: 2010-11-04T02:13:05Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00100323

Axiom
annotated source: embryonic/larval alimentary canal
annotated property: definition
annotated target: The entire embryonic/larval anatomical structure through which food and its digestion products are ingested, digested and excreted. At its anterior and posterior ends this includes structures that are not foregut or hindgut.
database_cross_reference: https://orcid.org/0000-0002-7073-9172

adult glial cell
type: Class
equivalent class: Class
  intersection of: glial cell
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: glial cell
subclass of: Restriction
  on property: part of
  some values from: adult nervous system
definition: Glial cell that is part of the adult. Subtypes generally tend to tile, minimizing contact with their glial neighbors and maximizing contact with their neuronal compartment (Kremer et al., 2017). They also do not seem to recognize particular neurons or neuropils; sometimes one glial cell has partial coverage of multiple units and multiple glial cells may tile across the same unit (Kremer et al., 2017).
contributor: Simon-Reeve-2162827703
date: 2011-04-19T01:31:16Z
database_cross_reference: VFB:FBbt_00100497
has OBO namespace: fly_anatomy.ontology
has related synonym: glia
id: FBbt:00100497

Axiom
annotated source: adult glial cell
annotated property: definition
annotated target: Glial cell that is part of the adult. Subtypes generally tend to tile, minimizing contact with their glial neighbors and maximizing contact with their neuronal compartment (Kremer et al., 2017). They also do not seem to recognize particular neurons or neuropils; sometimes one glial cell has partial coverage of multiple units and multiple glial cells may tile across the same unit (Kremer et al., 2017).
database_cross_reference: FlyBase:FBrf0206543
database_cross_reference: FlyBase:FBrf0214261
database_cross_reference: FlyBase:FBrf0234767

adult CNS glial cell
type: Class
equivalent class: Class
  intersection of: CNS glial cell
  intersection of: Restriction
    on property: overlaps
    some values from: adult
subclass of: CNS glial cell
subclass of: adult glial cell
subclass of: Restriction
  on property: part of
  some values from: adult central nervous system
definition: Glial cell that is part of the adult central nervous system.
contributor: Simon-Reeve-2162827703
date: 2011-04-26T02:22:14Z
database_cross_reference: VFB:FBbt_00100499
has exact synonym: adult central nervous system glial cell
has OBO namespace: fly_anatomy.ontology
id: FBbt:00100499

Axiom
annotated source: adult CNS glial cell
annotated property: definition
annotated target: Glial cell that is part of the adult central nervous system.
database_cross_reference: FlyBase:FBrf0206543

anatomical line
type: Class
subclass of: immaterial anatomical entity
definition: A one dimensional anatomical entity.
contributor: https://orcid.org/0000-0001-5948-3092
date: 2015-09-09T16:04:49Z
database_cross_reference: CARO:0000008
has OBO namespace: fly_anatomy.ontology
id: FBbt:00111202
in subset: cur

Axiom
annotated source: anatomical line
annotated property: definition
annotated target: A one dimensional anatomical entity.
database_cross_reference: CARO:0000008

midline
type: Class
subclass of: anatomical line
subclass of: Restriction
  on property: part of
  some values from: organism
definition: Line that runs along the anterior-posterior axis of the body, dividing it into two bilaterally symmetric regions.
contributor: https://orcid.org/0000-0001-5948-3092
date: 2017-01-31T11:44:21Z
has OBO namespace: fly_anatomy.ontology
id: FBbt:00111739
in subset: cur

Axiom
annotated source: midline
annotated property: definition
annotated target: Line that runs along the anterior-posterior axis of the body, dividing it into two bilaterally symmetric regions.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

anterior ectoderm anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: Restriction
  on property: part of
  some values from: ectoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: anterior ectoderm
definition: Anlage that develops into the anterior ectoderm. It is found anterior to the dorsal, lateral and ventral regions of the ectoderm anlage and posterior to the anterior endoderm anlage at the cellular blastoderm stage, prior to gastrulation (Stathopoulos and Newcomb, 2020).
has OBO namespace: fly_anatomy.ontology
id: FBbt:01000119
in subset: cur

Axiom
annotated source: anterior ectoderm anlage
annotated property: definition
annotated target: Anlage that develops into the anterior ectoderm. It is found anterior to the dorsal, lateral and ventral regions of the ectoderm anlage and posterior to the anterior endoderm anlage at the cellular blastoderm stage, prior to gastrulation (Stathopoulos and Newcomb, 2020).
database_cross_reference: FlyBase:FBrf0244630

posterior ectoderm anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: Restriction
  on property: part of
  some values from: ectoderm anlage
subclass of: Restriction
  on property: develops into
  some values from: posterior ectoderm
definition: Anlage that develops into the posterior ectoderm. It is found posterior to the dorsal, lateral and ventral regions of the ectoderm anlage and anterior to the posterior endoderm anlage at the cellular blastoderm stage, prior to gastrulation (Stathopoulos and Newcomb, 2020).
has OBO namespace: fly_anatomy.ontology
id: FBbt:01000122
in subset: cur

Axiom
annotated source: posterior ectoderm anlage
annotated property: definition
annotated target: Anlage that develops into the posterior ectoderm. It is found posterior to the dorsal, lateral and ventral regions of the ectoderm anlage and anterior to the posterior endoderm anlage at the cellular blastoderm stage, prior to gastrulation (Stathopoulos and Newcomb, 2020).
database_cross_reference: FlyBase:FBrf0244630

embryonic ventral trunk epidermis
type: Class
subclass of: ventral ectoderm derivative
subclass of: multicellular structure
subclass of: Restriction
  on property: part of
  some values from: embryonic ventral epidermis
subclass of: Restriction
  on property: develops from
  some values from: ventral trunk epidermis primordium
definition: The epidermis of the embryonic ventral trunk.
has OBO namespace: fly_anatomy.ontology
id: FBbt:01005747
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: embryonic ventral trunk epidermis
annotated property: definition
annotated target: The epidermis of the embryonic ventral trunk.
database_cross_reference: https://orcid.org/0000-0001-5948-3092

anatomical entity
type: Class
equivalent class: Class
  intersection of: CARO_0000000
  intersection of: Restriction
    on property: part of
    some values from: Drosophila melanogaster
subclass of: CARO_0000000
subclass of: Restriction
  on property: part of
  some values from: Drosophila melanogaster
definition: Anatomical entity which is part_of Drosophila melanogaster.
has alternative id: FBbt_root:00000000
database_cross_reference: UBERON:0001062
has OBO namespace: fly_anatomy.ontology
has related synonym: Drosophila
id: FBbt:10000000
in subset: EmbDevSlim
in subset: cur
in subset: larval OF

Axiom
annotated source: anatomical entity
annotated property: definition
annotated target: Anatomical entity which is part_of Drosophila melanogaster.
database_cross_reference: https://orcid.org/0000-0001-9114-8737

denticle field anlage
type: Class
subclass of: developing embryonic structure
subclass of: anlage
subclass of: ventral ectoderm derivative
subclass of: Restriction
  on property: part of
  some values from: late extended germ band embryo
subclass of: Restriction
  on property: develops from
  some values from: ventral epidermis primordium
subclass of: Restriction
  on property: develops into
  some values from: denticle field primordium
definition: A(n) anlage that develops into some denticle field primordium. It develops from some ventral epidermis primordium.
has OBO namespace: fly_anatomy.ontology
has related synonym: A DenBl
id: FBbt:10005326
in subset: EmbDevSlim
in subset: cur

Axiom
annotated source: denticle field anlage
annotated property: definition
annotated target: A(n) anlage that develops into some denticle field primordium. It develops from some ventral epidermis primordium.
database_cross_reference: FBC:Autogenerated

Axiom
annotated source: denticle field anlage
annotated property: hasRelatedSynonym
annotated target: A DenBl
database_cross_reference: https://orcid.org/0000-0002-7073-9172

FlyBase CV
type: Class
definition: FlyBase miscellaneous controlled vocabulary term.
has OBO namespace: FlyBase miscellaneous CV
id: FBcv:0000000

descriptor
type: Class
subclass of: FlyBase CV
definition: Term that describes an allele, balancer, group or publication.
has OBO namespace: FlyBase miscellaneous CV
id: FBcv:0000013
in subset: do not annotate

Axiom
annotated source: descriptor
annotated property: definition
annotated target: Term that describes an allele, balancer, group or publication.
database_cross_reference: FBC:MMC

dataset descriptor
type: Class
subclass of: descriptor
definition: Term that describes a dataset.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
has OBO namespace: FlyBase miscellaneous CV
id: FBcv:0003021

Axiom
annotated source: dataset descriptor
annotated property: definition
annotated target: Term that describes a dataset.
database_cross_reference: FBC:GD

dataset entity type
type: Class
subclass of: dataset descriptor
definition: Term that specifies the dataset component type.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
has OBO namespace: dataset_entity_type
id: FBcv:0003022

Axiom
annotated source: dataset entity type
annotated property: definition
annotated target: Term that specifies the dataset component type.
database_cross_reference: FBC:GD

project
type: Class
subclass of: dataset entity type
definition: A set of biological data from a single study. Corresponds to the NCBI bioproject, GEO series or SRA study.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
has OBO namespace: dataset_entity_type
id: FBcv:0003023

Axiom
annotated source: project
annotated property: definition
annotated target: A set of biological data from a single study. Corresponds to the NCBI bioproject, GEO series or SRA study.
database_cross_reference: FBC:GD

biosample
type: Class
subclass of: dataset entity type
definition: Biological source material characterized by an experiment.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
has OBO namespace: dataset_entity_type
id: FBcv:0003024

Axiom
annotated source: biosample
annotated property: definition
annotated target: Biological source material characterized by an experiment.
database_cross_reference: FBC:GD

assay
type: Class
subclass of: dataset entity type
definition: Quantitative or qualitative assessment of biological source material to measure some attribute.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
has OBO namespace: dataset_entity_type
id: FBcv:0003025

Axiom
annotated source: assay
annotated property: definition
annotated target: Quantitative or qualitative assessment of biological source material to measure some attribute.
database_cross_reference: FBC:GD

dataset data type
type: Class
subclass of: dataset descriptor
definition: The data type content of a dataset.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
has OBO namespace: FlyBase miscellaneous CV
id: FBcv:0003028

Axiom
annotated source: dataset data type
annotated property: definition
annotated target: The data type content of a dataset.
database_cross_reference: FBC:GD

assay type
type: Class
subclass of: dataset data type
definition: The type of assay as characterized by its data content.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
has OBO namespace: assay_type
id: FBcv:0003050

Axiom
annotated source: assay type
annotated property: definition
annotated target: The type of assay as characterized by its data content.
database_cross_reference: FBC:GD

RNA-Seq
type: Class
subclass of: assay type
definition: A quantitative method for mapping transcribed regions, in which complementary DNA fragments are subjected to high-throughput sequencing.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
database_cross_reference: EFO:0008896
has OBO namespace: assay_type
id: FBcv:0003068

Axiom
annotated source: RNA-Seq
annotated property: definition
annotated target: A quantitative method for mapping transcribed regions, in which complementary DNA fragments are subjected to high-throughput sequencing.
database_cross_reference: PMID:18451266

result type
type: Class
subclass of: dataset data type
definition: The type of result as characterized by its data content.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
has OBO namespace: result_type
id: FBcv:0003082

Axiom
annotated source: result type
annotated property: definition
annotated target: The type of result as characterized by its data content.
database_cross_reference: FBC:GD

analysis
type: Class
subclass of: result type
definition: A result that is produced from the detailed examination of data to come to some conclusion.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
has OBO namespace: result_type
id: FBcv:0003108

Axiom
annotated source: analysis
annotated property: definition
annotated target: A result that is produced from the detailed examination of data to come to some conclusion.
database_cross_reference: FBC:GD

dataset attribute
type: Class
subclass of: dataset descriptor
definition: A descriptor that describes some aspect of a dataset.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
has OBO namespace: FlyBase miscellaneous CV
id: FBcv:0003121

Axiom
annotated source: dataset attribute
annotated property: definition
annotated target: A descriptor that describes some aspect of a dataset.
database_cross_reference: FBC:GD

assay attribute
type: Class
subclass of: dataset attribute
definition: Some characteristic of an assay pertaining to the methods involved in processing the biological source material or generating the raw output data of the assay.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
has OBO namespace: assay_attribute
id: FBcv:0003175

Axiom
annotated source: assay attribute
annotated property: definition
annotated target: Some characteristic of an assay pertaining to the methods involved in processing the biological source material or generating the raw output data of the assay.
database_cross_reference: FBC:GD

assay method
type: Class
subclass of: assay attribute
definition: A method used to characterize the biological molecules isolated from a biosample.
contributor: http://orcid.org/0000-0001-5948-3092
date: 2016-02-24T19:19:21Z
has OBO namespace: assay_attribute
id: FBcv:0003208

Axiom
annotated source: assay method
annotated property: definition
annotated target: A method used to characterize the biological molecules isolated from a biosample.
database_cross_reference: FBC:GD

single-cell RNA-Seq
type: Class
subclass of: RNA-Seq
definition: A method for quantifying the transcriptome of individual cells, in which transcripts isolated from single cells are subjected to high-throughput sequencing and mapping to a reference genome.
contributor: http://orcid.org/0000-0002-6095-8718
date: 2021-07-26T12:18:07Z
database_cross_reference: EFO:0008913
database_cross_reference: OBI:0002631
has exact synonym: scRNA-Seq
has exact synonym: single-cell RNA sequencing assay
has OBO namespace: assay_type
id: FBcv:0009000

Axiom
annotated source: single-cell RNA-Seq
annotated property: definition
annotated target: A method for quantifying the transcriptome of individual cells, in which transcripts isolated from single cells are subjected to high-throughput sequencing and mapping to a reference genome.
database_cross_reference: PMID:28821273

Axiom
annotated source: single-cell RNA-Seq
annotated property: hasExactSynonym
annotated target: scRNA-Seq
database_cross_reference: PMID:32405060

single-nucleus RNA-Seq
type: Class
subclass of: single-cell RNA-Seq
definition: A method for quantifying the transcriptome of individual cells, in which transcripts isolated from single nuclei are subjected to high-throughput sequencing and mapping to a reference genome.
contributor: http://orcid.org/0000-0002-6095-8718
date: 2021-07-26T12:19:45Z
database_cross_reference: EFO:0009809
has exact synonym: single-nucleus RNA sequencing assay
has exact synonym: snRNA-Seq
has OBO namespace: assay_type
id: FBcv:0009001

Axiom
annotated source: single-nucleus RNA-Seq
annotated property: definition
annotated target: A method for quantifying the transcriptome of individual cells, in which transcripts isolated from single nuclei are subjected to high-throughput sequencing and mapping to a reference genome.
database_cross_reference: PMID:28821273

Axiom
annotated source: single-nucleus RNA-Seq
annotated property: hasExactSynonym
annotated target: snRNA-Seq
database_cross_reference: PMID:32405060

cell clustering analysis
type: Class
subclass of: analysis
definition: A result that groups individual cells into populations sharing a similar transcriptional profile.
contributor: http://orcid.org/0000-0002-6095-8718
date: 2021-07-26T12:21:05Z
has OBO namespace: result_type
id: FBcv:0009002

Axiom
annotated source: cell clustering analysis
annotated property: definition
annotated target: A result that groups individual cells into populations sharing a similar transcriptional profile.
database_cross_reference: PMID:28821273

transcriptional cell cluster
type: Class
subclass of: result type
definition: A result that represents a population of cells sharing a similar transcriptional profile.
contributor: http://orcid.org/0000-0002-6095-8718
date: 2021-07-26T12:22:16Z
has OBO namespace: result_type
id: FBcv:0009003

Axiom
annotated source: transcriptional cell cluster
annotated property: definition
annotated target: A result that represents a population of cells sharing a similar transcriptional profile.
database_cross_reference: PMID:28821273

single-cell library sequencing
type: Class
subclass of: assay method
definition: A method to prepare and sequence a library of cDNAs obtained from single cells.
contributor: http://orcid.org/0000-0002-6095-8718
date: 2021-07-26T13:40:26Z
has OBO namespace: assay_attribute
id: FBcv:0009005

Axiom
annotated source: single-cell library sequencing
annotated property: definition
annotated target: A method to prepare and sequence a library of cDNAs obtained from single cells.
database_cross_reference: FBC:DPG

single-cell combinatorial indexing RNA sequencing
type: Class
subclass of: single-cell library sequencing
definition: A method that uses split-pool barcoding to unique label the mRNAs from a large number of single cells and sequence the resulting cDNA libraries (Cao et al., 2019).
contributor: https://orcid.org/0000-0002-6095-8718
date: 2025-01-27T11:13:39Z
has exact synonym: sci-RNA-seq
has narrow synonym: sci-RNA-seq3
has OBO namespace: assay_attribute
id: FBcv:0009056

Axiom
annotated source: single-cell combinatorial indexing RNA sequencing
annotated property: definition
annotated target: A method that uses split-pool barcoding to unique label the mRNAs from a large number of single cells and sequence the resulting cDNA libraries (Cao et al., 2019).
database_cross_reference: PMID:28818938

Drosophila life
type: Class
subclass of: BFO_0000003
definition: The life of an individual of the species Drosophila melanogaster, from fertilization to death.
has alternative id: FBdv_root:00000000
has exact synonym: Drosophila life cycle
has OBO namespace: FlyBase_development_CV
id: FBdv:00000000

Axiom
annotated source: Drosophila life
annotated property: definition
annotated target: The life of an individual of the species Drosophila melanogaster, from fertilization to death.
database_cross_reference: FBC:DOS

cleavage stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: fertilized egg stage
definition: Stage during which the nucleus of the fertilized egg performs 13 rapid divisions, prior to cellularization (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997). The first seven divisions are synchronous (Campos-Ortega and Hartenstein, 1997). During the course of the subsequent three divisions, most of the nuclei approach the surface and then divide asynchronously a further three times, bringing the total number of cells to around 5000 (Campos-Ortega and Hartenstein, 1997). This corresponds to embryonic stages 1-4 (Hartenstein, 1993).
has OBO namespace: FlyBase_development_CV
id: FBdv:00000054
comment: Temporal ordering number - 25.

Axiom
annotated source: cleavage stage
annotated property: definition
annotated target: Stage during which the nucleus of the fertilized egg performs 13 rapid divisions, prior to cellularization (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997). The first seven divisions are synchronous (Campos-Ortega and Hartenstein, 1997). During the course of the subsequent three divisions, most of the nuclei approach the surface and then divide asynchronously a further three times, bringing the total number of cells to around 5000 (Campos-Ortega and Hartenstein, 1997). This corresponds to embryonic stages 1-4 (Hartenstein, 1993).
database_cross_reference: FlyBase:FBrf0064803
database_cross_reference: FlyBase:FBrf0089570

late extended germ band stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: extended germ band stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 10
subclass of: Restriction
  on property: immediately preceded by
  some values from: early extended germ band stage
definition: A collective term for stages 11 and 12.
has OBO namespace: FlyBase_development_CV
id: FBdv:00004450
comment: Temporal ordering number - 300.

Axiom
annotated source: late extended germ band stage
annotated property: definition
annotated target: A collective term for stages 11 and 12.
database_cross_reference: FBC:DOS

oogenesis
type: Class
subclass of: developmental process
definition: The complete process of formation and maturation of an ovum or female gemate from a primordial female germ cell.
database_cross_reference: GO:0048477
has exact synonym: oogenesis stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00004886
comment: Temporal ordering number - 10000.

Axiom
annotated source: oogenesis
annotated property: definition
annotated target: The complete process of formation and maturation of an ovum or female gemate from a primordial female germ cell.
database_cross_reference: GO:0048477

developmental stage
type: Class
subclass of: BFO_0000003
definition: A temporal subdivision of a developmental process.
contributor: http://orcid.org/0000-0002-7073-9172
date: 2009-10-01T05:56:56Z
has alternative id: FBdv:00007010
has OBO namespace: FlyBase_development_CV
id: FBdv:00005259

Axiom
annotated source: developmental stage
annotated property: definition
annotated target: A temporal subdivision of a developmental process.
database_cross_reference: FBC:DOS

oogenesis stage S1
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
definition: Earliest stage of ovarian cyst development - lasts while the 16 cell cyst is within the germarium (region 3).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005261
comment: Temporal ordering number - 10010.

Axiom
annotated source: oogenesis stage S1
annotated property: definition
annotated target: Earliest stage of ovarian cyst development - lasts while the 16 cell cyst is within the germarium (region 3).
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S2
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S1
definition: Oogenesis stage that begins when the cyst leaves the germarium (from this point the cyst is referred to as an egg chamber). During this stage, polyploidation of the nurse cells begins, they reach a ploidy of 8C, and follicle cells start to divide.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005262
comment: Temporal ordering number - 10020.

Axiom
annotated source: oogenesis stage S2
annotated property: definition
annotated target: Oogenesis stage that begins when the cyst leaves the germarium (from this point the cyst is referred to as an egg chamber). During this stage, polyploidation of the nurse cells begins, they reach a ploidy of 8C, and follicle cells start to divide.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S3
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S2
definition: Oogenesis stage that begins when the oocyte chromosomes condense into a karyosome attached to a distinctive spherical structure known as an endobody. The oocyte nucleolus disappears completely. During this stage, nurse cell ploidy reaches 16C.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005263
comment: Temporal ordering number - 10030.

Axiom
annotated source: oogenesis stage S3
annotated property: definition
annotated target: Oogenesis stage that begins when the oocyte chromosomes condense into a karyosome attached to a distinctive spherical structure known as an endobody. The oocyte nucleolus disappears completely. During this stage, nurse cell ploidy reaches 16C.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S4
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S3
definition: Oogenesis stage that begins when the nurse cells chromosomes become bulbous. Nurse cell chromosomes during this stage are polytene and reach a ploidy of 32C. The egg chamber is oval shaped.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005264
comment: Temporal ordering number - 10040.

Axiom
annotated source: oogenesis stage S4
annotated property: definition
annotated target: Oogenesis stage that begins when the nurse cells chromosomes become bulbous. Nurse cell chromosomes during this stage are polytene and reach a ploidy of 32C. The egg chamber is oval shaped.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S5
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S4
definition: Oogenesis stage that begins when nurse cell chromosomes are no longer bulbous - the association between homologs weakens so that these chromosomes no longer have a polytene structure. During this stage, posterior nurse cell nuclei have a higher ploidy (64C) than anterior ones.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005265
comment: Temporal ordering number - 10050.

Axiom
annotated source: oogenesis stage S5
annotated property: definition
annotated target: Oogenesis stage that begins when nurse cell chromosomes are no longer bulbous - the association between homologs weakens so that these chromosomes no longer have a polytene structure. During this stage, posterior nurse cell nuclei have a higher ploidy (64C) than anterior ones.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S6
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S5
definition: Oogenesis stage during which follicle cell division ceases.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005266
comment: Temporal ordering number - 10060.

Axiom
annotated source: oogenesis stage S6
annotated property: definition
annotated target: Oogenesis stage during which follicle cell division ceases.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S7
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S6
definition: Oogenesis stage during which polyploidation and enlargement of follicle cells begins. Nurse cell ploidy ranges from 256C (anterior) to 512C (posterior) and the egg chamber gains an elongated shape.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005267
comment: Temporal ordering number - 10070.

Axiom
annotated source: oogenesis stage S7
annotated property: definition
annotated target: Oogenesis stage during which polyploidation and enlargement of follicle cells begins. Nurse cell ploidy ranges from 256C (anterior) to 512C (posterior) and the egg chamber gains an elongated shape.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S8
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S7
definition: Oogenesis stage which begins when yolk first appears in the oocyte. Follicle cell migration over the oocyte begins during this stage (although mostly occurs during stage 9).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005268
comment: Temporal ordering number - 10080.

Axiom
annotated source: oogenesis stage S8
annotated property: definition
annotated target: Oogenesis stage which begins when yolk first appears in the oocyte. Follicle cell migration over the oocyte begins during this stage (although mostly occurs during stage 9).
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S9
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S8
definition: Oogenesis stage that begins when the border cells begin to migrate. During this stage: the oocyte is about 1/3 the length of the egg chamber with its nucleus located antero-dorsally; follicle cell migration results in an anterior to posterior gradient of follicle cell thickness with posterior cells being thicker (-> columnar) and posterior cells thinner ( -> squamous); border cell migration begins and ends; secretion of vitelline membrane begins.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005269
comment: Temporal ordering number - 10090.

Axiom
annotated source: oogenesis stage S9
annotated property: definition
annotated target: Oogenesis stage that begins when the border cells begin to migrate. During this stage: the oocyte is about 1/3 the length of the egg chamber with its nucleus located antero-dorsally; follicle cell migration results in an anterior to posterior gradient of follicle cell thickness with posterior cells being thicker (-> columnar) and posterior cells thinner ( -> squamous); border cell migration begins and ends; secretion of vitelline membrane begins.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S10
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S9
definition: Oogenesis stage that begins when all the oocyte associated follicular epithelium is columnar and all of the nurse cell associated follicular epithelium is completely squamous and ends with the beginning of nurse cell dumping.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005270
comment: Temporal ordering number - 10100.

Axiom
annotated source: oogenesis stage S10
annotated property: definition
annotated target: Oogenesis stage that begins when all the oocyte associated follicular epithelium is columnar and all of the nurse cell associated follicular epithelium is completely squamous and ends with the beginning of nurse cell dumping.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S10A
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis stage S10
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S9
definition: Oogenesis stage which begins when all the oocyte associated follicular epithelium is columnar and all of the nurse cell associated follicular epithelium is completely squamous and ends when centripetal follicle migration begins. During this stage, the migrating border cells reach the oocyte. The oocyte is about 50% egg chamber length.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005271
comment: Temporal ordering number - 10110.

Axiom
annotated source: oogenesis stage S10A
annotated property: definition
annotated target: Oogenesis stage which begins when all the oocyte associated follicular epithelium is columnar and all of the nurse cell associated follicular epithelium is completely squamous and ends when centripetal follicle migration begins. During this stage, the migrating border cells reach the oocyte. The oocyte is about 50% egg chamber length.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074

oogenesis stage S10B
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis stage S10
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S10A
definition: Oogenesis stage that begins when the centripetal follicle cells begin to migrate. As a result, the vitelline membrane extends into the opercular region. This stage ends when nurse cell dumping begins.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005272
comment: Temporal ordering number - 10120.

Axiom
annotated source: oogenesis stage S10B
annotated property: definition
annotated target: Oogenesis stage that begins when the centripetal follicle cells begin to migrate. As a result, the vitelline membrane extends into the opercular region. This stage ends when nurse cell dumping begins.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S11
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S10
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S10B
definition: Oogenesis stage that begins when nurse cell dumping begins and development of the wax layer begins. The dorsal appendages begin to form during this stage. This stage ends when dying nurse cells form an anterior cap to the oocyte.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005273
comment: Temporal ordering number - 10130.

Axiom
annotated source: oogenesis stage S11
annotated property: definition
annotated target: Oogenesis stage that begins when nurse cell dumping begins and development of the wax layer begins. The dorsal appendages begin to form during this stage. This stage ends when dying nurse cells form an anterior cap to the oocyte.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0043885
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S12
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S11
definition: Oogenesis stage that begins when dying nurse cells form an anterior cap to the oocyte. Shortly after this, nurse cell dumping and growth of the oocyte are complete. Elongation of the dorsal appendages and formation of the innermost chorionic layer and endochorion begins during this stage.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005274
comment: Temporal ordering number - 10160.

Axiom
annotated source: oogenesis stage S12
annotated property: definition
annotated target: Oogenesis stage that begins when dying nurse cells form an anterior cap to the oocyte. Shortly after this, nurse cell dumping and growth of the oocyte are complete. Elongation of the dorsal appendages and formation of the innermost chorionic layer and endochorion begins during this stage.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0043885
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S12A
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis stage S12
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S11
definition: Innermost chorionic layer and endochorion begin to form in the anterior of the follicle.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005275
comment: Temporal ordering number - 10170.

Axiom
annotated source: oogenesis stage S12A
annotated property: definition
annotated target: Innermost chorionic layer and endochorion begin to form in the anterior of the follicle.
database_cross_reference: FlyBase:FBrf0043885

oogenesis stage S12B
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis stage S12
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S12A
definition: Secretion of innermost chorionic layer and endochorion begins in the main follicle cells.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005276
comment: Temporal ordering number - 10180.

Axiom
annotated source: oogenesis stage S12B
annotated property: definition
annotated target: Secretion of innermost chorionic layer and endochorion begins in the main follicle cells.
database_cross_reference: FlyBase:FBrf0043885

oogenesis stage S12C
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis stage S12
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S12B
definition: Formation of specialized endochorion structures in the anterior of the follicle: branches in the developing dorsal appendages; compact endochorion lacking the pillars seen in the rest of the follicle.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005277
comment: Temporal ordering number - 10190.

Axiom
annotated source: oogenesis stage S12C
annotated property: definition
annotated target: Formation of specialized endochorion structures in the anterior of the follicle: branches in the developing dorsal appendages; compact endochorion lacking the pillars seen in the rest of the follicle.
database_cross_reference: FlyBase:FBrf0021038

oogenesis stage S13
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S12
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S12C
definition: Oogenesis stage that begins when the micropyle begins to form. At the beginning of this stage, about 12-15 nurse cell nuclei remain at the anterior of the oocyte. By the end of this stage, none of these nuclei remain. Oocyte meiosis up to arrest at full metaphase I occurs during this stage.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005278
comment: Temporal ordering number - 10200.

Axiom
annotated source: oogenesis stage S13
annotated property: definition
annotated target: Oogenesis stage that begins when the micropyle begins to form. At the beginning of this stage, about 12-15 nurse cell nuclei remain at the anterior of the oocyte. By the end of this stage, none of these nuclei remain. Oocyte meiosis up to arrest at full metaphase I occurs during this stage.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0029744
database_cross_reference: FlyBase:FBrf0034074
database_cross_reference: FlyBase:FBrf0064777

oogenesis stage S13A
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis stage S13
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S12C
definition: Oogenesis stage during which 12-15 nurse cell nuclei remain at the anterior of the oocyte. At this stage, the oocyte nucleus has reached its maximum volume and its chromosomes are compressed into a 5-7 micrometer karyosome.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005279
comment: Temporal ordering number - 10210. An alternative division of stage 13 into two sub-stages, A and B, has been defined on the basis of chorion development (see FBrf0043885). This ontology uses an alternative subdivision based on nurse cell nucleus number and oocyte meiosis, as the former at least, is easier to score than chorion ultrastructure.

Axiom
annotated source: oogenesis stage S13A
annotated property: definition
annotated target: Oogenesis stage during which 12-15 nurse cell nuclei remain at the anterior of the oocyte. At this stage, the oocyte nucleus has reached its maximum volume and its chromosomes are compressed into a 5-7 micrometer karyosome.
database_cross_reference: FlyBase:FBrf0029744

oogenesis stage S13B
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis stage S13
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S13A
definition: Oogenesis stage during which 9-11 nurse cell nuclei remain at the anterior of the oocyte. During this stage, the nuclear membrane of the oocyte nucleus disappears, indicating the start of meiotic pro-metaphase.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005280
comment: Temporal ordering number - 10220. An alternative division of stage 13 into two sub-stages, A and B, has been defined on the basis of chorion development (see FBrf0043885). This ontology uses an alternative subdivision based on nurse cell nucleus number and oocyte meiosis, as the former at least, is easier to score than chorion ultrastructure.

Axiom
annotated source: oogenesis stage S13B
annotated property: definition
annotated target: Oogenesis stage during which 9-11 nurse cell nuclei remain at the anterior of the oocyte. During this stage, the nuclear membrane of the oocyte nucleus disappears, indicating the start of meiotic pro-metaphase.
database_cross_reference: FlyBase:FBrf0029744

oogenesis stage S13C
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis stage S13
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S13B
definition: Oogenesis stage during which only 7-8 nurse cell nuclei remain at the anterior of the oocyte. At the beginning of this stage, oocyte chromosome bivalents separate from each other - indicating mid-prometaphase of oocyte meiosis.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005281
comment: Temporal ordering number - 10230.

Axiom
annotated source: oogenesis stage S13C
annotated property: definition
annotated target: Oogenesis stage during which only 7-8 nurse cell nuclei remain at the anterior of the oocyte. At the beginning of this stage, oocyte chromosome bivalents separate from each other - indicating mid-prometaphase of oocyte meiosis.
database_cross_reference: FlyBase:FBrf0029744

oogenesis stage S13D
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis stage S13
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S13C
definition: Oogenesis stage during which only 5-6 nurse cell nuclei remain at the anterior of the oocyte. The oocyte nucleus is in late prometaphase:the bivalents arrange themselves in on the equatorial plane of the spindle; homologous centromeres are pulled towards the poles.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005282
comment: Temporal ordering number - 10240.

Axiom
annotated source: oogenesis stage S13D
annotated property: definition
annotated target: Oogenesis stage during which only 5-6 nurse cell nuclei remain at the anterior of the oocyte. The oocyte nucleus is in late prometaphase:the bivalents arrange themselves in on the equatorial plane of the spindle; homologous centromeres are pulled towards the poles.
database_cross_reference: FlyBase:FBrf0029744

oogenesis stage S14
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S13
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S13D
definition: The last stage of oogenesis. This stage begins when no nurse cell nuclei remain at the anterior of the egg (chamber). Exochorion formation and secretion occurs during this stage. The dorsal appendages complete their elongation and the follicle cells die.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005283
comment: Temporal ordering number - 10260.

Axiom
annotated source: oogenesis stage S14
annotated property: definition
annotated target: The last stage of oogenesis. This stage begins when no nurse cell nuclei remain at the anterior of the egg (chamber). Exochorion formation and secretion occurs during this stage. The dorsal appendages complete their elongation and the follicle cells die.
database_cross_reference: FlyBase:FBrf0043885

oogenesis stage S14A
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis stage S14
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S13D
definition: Secretion and formation of the outer endochorionic network by throughout the follicle. Crystallization of the innermost chorionic layer of the main body follicle cells.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005284
comment: Temporal ordering number - 10270.

Axiom
annotated source: oogenesis stage S14A
annotated property: definition
annotated target: Secretion and formation of the outer endochorionic network by throughout the follicle. Crystallization of the innermost chorionic layer of the main body follicle cells.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0043885

oogenesis stage S14B
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: oogenesis stage S14
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S14A
definition: Secretion of the exochorion begins and ends.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005285
comment: Temporal ordering number - 10280.

Axiom
annotated source: oogenesis stage S14B
annotated property: definition
annotated target: Secretion of the exochorion begins and ends.
database_cross_reference: FlyBase:FBrf0021038
database_cross_reference: FlyBase:FBrf0043885

egg stage
type: Class
subclass of: developmental stage
definition: The stage of the Drosophila life-cycle from maturation of an egg to the end of fertilization. At the beginning of this stage, the nucleus is arrested in meiotic metaphase I. The completion of meiosis and the start of protein synthesis are triggered by ovulation. If the female has already mated, fertilization begins during meiosis.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005286
comment: Temporal ordering number - 10290.

Axiom
annotated source: egg stage
annotated property: definition
annotated target: The stage of the Drosophila life-cycle from maturation of an egg to the end of fertilization. At the beginning of this stage, the nucleus is arrested in meiotic metaphase I. The completion of meiosis and the start of protein synthesis are triggered by ovulation. If the female has already mated, fertilization begins during meiosis.
database_cross_reference: FlyBase:FBrf0064779

unfertilized egg stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: egg stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S14
subclass of: Restriction
  on property: immediately preceded by
  some values from: oogenesis stage S14B
definition: Developmental stage that starts with ovulation, at the end of oogenesis, until the egg is fertilized by a sperm.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005287
comment: Temporal ordering number - 10300.

Axiom
annotated source: unfertilized egg stage
annotated property: definition
annotated target: Developmental stage that starts with ovulation, at the end of oogenesis, until the egg is fertilized by a sperm.
database_cross_reference: FlyBase:FBrf0158848

fertilized egg stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: egg stage
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: unfertilized egg stage
definition: Developmental stage that starts with sperm entry until the first mitotic division of the zygote.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005288
comment: Temporal ordering number - 10.

Axiom
annotated source: fertilized egg stage
annotated property: definition
annotated target: Developmental stage that starts with sperm entry until the first mitotic division of the zygote.
database_cross_reference: FlyBase:FBrf0229233

embryonic stage
type: Class
subclass of: life stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: unfertilized egg stage
subclass of: Restriction
  on property: immediately precedes
  some values from: larval stage
subclass of: Restriction
  on property: immediately precedes
  some values from: first instar larval stage
definition: Life stage that begins with a fertilized egg, and finishes with hatching at the end of embryonic stage 17 (Campos-Ortega and Hartenstein, 1997).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005289
comment: Temporal ordering number - 20.

Axiom
annotated source: embryonic stage
annotated property: definition
annotated target: Life stage that begins with a fertilized egg, and finishes with hatching at the end of embryonic stage 17 (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0089570

pre-blastoderm stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: cleavage stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: fertilized egg stage
definition: Stage prior to the formation of the syncitial blastoderm, including the first 9 cell divisions and the migration of nuclei to the periphery (cortex) of the embryo (Foe and Alberts, 1983; Jaeger et al., 2012). This lasts from fertilization to embryonic stage 3 (Campos-Ortega and Hartenstein, 1997).
has exact synonym: pre-blastoderm
has OBO namespace: FlyBase_development_CV
id: FBdv:00005290
comment: Temporal ordering number - 30.

Axiom
annotated source: pre-blastoderm stage
annotated property: definition
annotated target: Stage prior to the formation of the syncitial blastoderm, including the first 9 cell divisions and the migration of nuclei to the periphery (cortex) of the embryo (Foe and Alberts, 1983; Jaeger et al., 2012). This lasts from fertilization to embryonic stage 3 (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0039741
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0220623

embryonic stage 1
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pre-blastoderm stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: fertilized egg stage
definition: The embryonic stage that lasts from the end of fertilization to the end of the second nuclear division. Duration at 25 degrees C: approximately 25 minutes (0-25 minutes after egg laying).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005291
comment: Temporal ordering number - 40.

Axiom
annotated source: embryonic stage 1
annotated property: definition
annotated target: The embryonic stage that lasts from the end of fertilization to the end of the second nuclear division. Duration at 25 degrees C: approximately 25 minutes (0-25 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0064779
database_cross_reference: FlyBase:FBrf0089570

embryonic cycle 1
type: Class
subclass of: embryonic cycle
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 1
subclass of: Restriction
  on property: immediately preceded by
  some values from: fertilized egg stage
definition: The first mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005292
comment: Temporal ordering number - 50.

Axiom
annotated source: embryonic cycle 1
annotated property: definition
annotated target: The first mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
database_cross_reference: FlyBase:FBrf0049535

embryonic stage 2
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pre-blastoderm stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 1
definition: Nuclear divisions 3-8. The egg cytoplasm contracts producing a clear separation from the vitelline membrane and empty spaces at the anterior and posterior. The cleavage nuclei migrate towards the periphery. Duration at 25 degrees C approximately 40 minutes (25-65 minutes AEL).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005293
comment: Temporal ordering number - 70.

Axiom
annotated source: embryonic stage 2
annotated property: definition
annotated target: Nuclear divisions 3-8. The egg cytoplasm contracts producing a clear separation from the vitelline membrane and empty spaces at the anterior and posterior. The cleavage nuclei migrate towards the periphery. Duration at 25 degrees C approximately 40 minutes (25-65 minutes AEL).
database_cross_reference: FlyBase:FBrf0089570

embryonic cycle 2
type: Class
subclass of: embryonic cycle
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 2
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic cycle 1
definition: The second mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005294
comment: Temporal ordering number - 60.

Axiom
annotated source: embryonic cycle 2
annotated property: definition
annotated target: The second mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
database_cross_reference: FlyBase:FBrf0049535

embryonic cycle 3
type: Class
subclass of: embryonic cycle
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 2
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 1
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic cycle 2
definition: The third mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005295
comment: Temporal ordering number - 80.

Axiom
annotated source: embryonic cycle 3
annotated property: definition
annotated target: The third mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
database_cross_reference: FlyBase:FBrf0049535

embryonic cycle 4
type: Class
subclass of: embryonic cycle
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 2
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic cycle 3
definition: The fourth mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005296
comment: Temporal ordering number - 90.

Axiom
annotated source: embryonic cycle 4
annotated property: definition
annotated target: The fourth mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
database_cross_reference: FlyBase:FBrf0049535

embryonic cycle 5
type: Class
subclass of: embryonic cycle
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 2
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic cycle 4
definition: The fifth mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005297
comment: Temporal ordering number - 100.

Axiom
annotated source: embryonic cycle 5
annotated property: definition
annotated target: The fifth mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
database_cross_reference: FlyBase:FBrf0049535

embryonic cycle 6
type: Class
subclass of: embryonic cycle
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 2
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic cycle 5
definition: The sixth mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005298
comment: Temporal ordering number - 110.

Axiom
annotated source: embryonic cycle 6
annotated property: definition
annotated target: The sixth mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
database_cross_reference: FlyBase:FBrf0049535

embryonic cycle 7
type: Class
subclass of: embryonic cycle
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 2
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic cycle 6
definition: The seventh mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005299
comment: Temporal ordering number - 120.

Axiom
annotated source: embryonic cycle 7
annotated property: definition
annotated target: The seventh mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
database_cross_reference: FlyBase:FBrf0049535

embryonic cycle 8
type: Class
subclass of: embryonic cycle
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 2
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic cycle 7
definition: The eighth mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005300
comment: Temporal ordering number - 130.

Axiom
annotated source: embryonic cycle 8
annotated property: definition
annotated target: The eighth mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
database_cross_reference: FlyBase:FBrf0049535

embryonic stage 3
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pre-blastoderm stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 2
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic cycle 8
definition: Nuclear division 9. The cleavage nuclei complete their migration to the periphery. Polar buds form at the posterior pole and divide once. Duration at 25 degrees C: approximately 15 minutes (65-80 minutes after egg laying).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005301
comment: Temporal ordering number - 140.

Axiom
annotated source: embryonic stage 3
annotated property: definition
annotated target: Nuclear division 9. The cleavage nuclei complete their migration to the periphery. Polar buds form at the posterior pole and divide once. Duration at 25 degrees C: approximately 15 minutes (65-80 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

embryonic cycle 9
type: Class
subclass of: embryonic cycle
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 3
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 2
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic cycle 8
definition: The ninth mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005302
comment: Temporal ordering number - 150.

Axiom
annotated source: embryonic cycle 9
annotated property: definition
annotated target: The ninth mitotic cell cycle of embryogenesis. This occurs synchronously across the embryo.
database_cross_reference: FlyBase:FBrf0049535

blastoderm stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pre-blastoderm stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 3
definition: Stage during which most of the nuclei are arranged as a monolayer at the cortex (periphery) of the embryo (Foe and Alberts, 1983; Jaeger et al., 2012). It begins shortly after completion of the ninth cleavage division and lasts until the onset of gastrulation, including cleavage cycles 10-14A (Foe and Alberts, 1983; Jaeger et al., 2012). This corresponds to embryonic stages 4 (syncitial blastoderm stage) and 5 (cellular blastoderm stage) (Campos-Ortega and Hartenstein, 1997).
has exact synonym: blastoderm
has OBO namespace: FlyBase_development_CV
id: FBdv:00005304
comment: Temporal ordering number - 160.

Axiom
annotated source: blastoderm stage
annotated property: definition
annotated target: Stage during which most of the nuclei are arranged as a monolayer at the cortex (periphery) of the embryo (Foe and Alberts, 1983; Jaeger et al., 2012). It begins shortly after completion of the ninth cleavage division and lasts until the onset of gastrulation, including cleavage cycles 10-14A (Foe and Alberts, 1983; Jaeger et al., 2012). This corresponds to embryonic stages 4 (syncitial blastoderm stage) and 5 (cellular blastoderm stage) (Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0039741
database_cross_reference: FlyBase:FBrf0089570
database_cross_reference: FlyBase:FBrf0220623

embryonic stage 4
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: blastoderm stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pre-blastoderm stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 3
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic cycle 9
definition: Nuclear division 10-13. Polar buds divide twice and become tightly grouped at the posterior pole by the end of this stage. Nuclei visible at the rim of the embryo. Stage 4 ends with the beginning of cellularization. Duration at 25 degrees C: approximately 50 minutes (80-130 minutes after egg laying).
has exact synonym: syncytial blastoderm stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005306
comment: Temporal ordering number - 170.

Axiom
annotated source: embryonic stage 4
annotated property: definition
annotated target: Nuclear division 10-13. Polar buds divide twice and become tightly grouped at the posterior pole by the end of this stage. Nuclei visible at the rim of the embryo. Stage 4 ends with the beginning of cellularization. Duration at 25 degrees C: approximately 50 minutes (80-130 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

Axiom
annotated source: embryonic stage 4
annotated property: hasExactSynonym
annotated target: syncytial blastoderm stage
database_cross_reference: FlyBase:FBrf0089570

embryonic stage 5
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: blastoderm stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: cleavage stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 4
definition: Cellularization. Stage 5 begins when cellularization starts. Near the end of this stage the pole cells begin to migrate dorsally and ventral midline cells acquire an irregular, wavy appearance. Stage 5 ends when ventral furrow formation becomes apparent. Duration at 25 degrees: approximately 40 minutes (130-170 minutes after egg laying).
has exact synonym: cellular blastoderm stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005311
comment: Temporal ordering number - 210.

Axiom
annotated source: embryonic stage 5
annotated property: definition
annotated target: Cellularization. Stage 5 begins when cellularization starts. Near the end of this stage the pole cells begin to migrate dorsally and ventral midline cells acquire an irregular, wavy appearance. Stage 5 ends when ventral furrow formation becomes apparent. Duration at 25 degrees: approximately 40 minutes (130-170 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

Axiom
annotated source: embryonic stage 5
annotated property: hasExactSynonym
annotated target: cellular blastoderm stage
database_cross_reference: FlyBase:FBrf0089570

gastrula stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: blastoderm stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 5
definition: Stage during which gastrulation occurs. During this stage, cells from the polar caps and the mid-ventral part of the blastoderm invaginate and ultimately generate the germ layers (Hartenstein, 1993). This encompasses embryonic stages 6-8 (Hartenstein, 1993).
has exact synonym: gastrula
has exact synonym: gastrulation stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005317
comment: Temporal ordering number - 220.

Axiom
annotated source: gastrula stage
annotated property: definition
annotated target: Stage during which gastrulation occurs. During this stage, cells from the polar caps and the mid-ventral part of the blastoderm invaginate and ultimately generate the germ layers (Hartenstein, 1993). This encompasses embryonic stages 6-8 (Hartenstein, 1993).
database_cross_reference: FlyBase:FBrf0064803

embryonic stage 6
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: gastrula stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: blastoderm stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 5
definition: Stage 6 begins when the ventral furrow becomes apparent, an event which is followed rapidly by the formation of the cephalic furrow. Stage 6 ends when the pole cells have adopted a dorsal (horizontal) position at the posterior. Duration at 25 degrees C: approximately 10 minutes (170-180 minutes after egg laying).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005318
comment: Temporal ordering number - 230.

Axiom
annotated source: embryonic stage 6
annotated property: definition
annotated target: Stage 6 begins when the ventral furrow becomes apparent, an event which is followed rapidly by the formation of the cephalic furrow. Stage 6 ends when the pole cells have adopted a dorsal (horizontal) position at the posterior. Duration at 25 degrees C: approximately 10 minutes (170-180 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

embryonic stage 7
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: gastrula stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 6
definition: Stage 7 begins when the pole cells have adopted a dorsal (horizontal) position at the posterior. Invagination of the anterior and posterior midgut and hindgut follows. The 'discoid plate' that carries the pole cells forms a pocket. Transverse furrows (dorsal folds) form on the dorsal surface. This stage ends when the anterior wall of the amnioproctodeal invagination starts moving anteriorly and the pole cells are no longer visible externally. Duration at 25 degrees C: approximately 10 minutes (180-190 minutes after egg laying).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005319
comment: Temporal ordering number - 240.

Axiom
annotated source: embryonic stage 7
annotated property: definition
annotated target: Stage 7 begins when the pole cells have adopted a dorsal (horizontal) position at the posterior. Invagination of the anterior and posterior midgut and hindgut follows. The 'discoid plate' that carries the pole cells forms a pocket. Transverse furrows (dorsal folds) form on the dorsal surface. This stage ends when the anterior wall of the amnioproctodeal invagination starts moving anteriorly and the pole cells are no longer visible externally. Duration at 25 degrees C: approximately 10 minutes (180-190 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

extended germ band stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: gastrula stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 8
definition: Stages during which the germ band is extended - 9-12.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005321
comment: Temporal ordering number - 260.

Axiom
annotated source: extended germ band stage
annotated property: definition
annotated target: Stages during which the germ band is extended - 9-12.
database_cross_reference: FBC:DOS
database_cross_reference: FlyBase:FBrf0229323

embryonic stage 8
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: gastrula stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 7
definition: Stage 8 starts with the rapid phase of germ band extension and ends with the beginning of mesodermal segmentation. By the end of this stage germ band extension has progressed to the point where the proctodeal opening is at about 60% egg length and the dorsal folds (transverse furrows) are no longer visible. Duration at 25 degrees C: approximately 30 minutes (190-220 minutes after egg laying).
has exact synonym: rapidly extending germ band stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005322
comment: Temporal ordering number - 250.

Axiom
annotated source: embryonic stage 8
annotated property: definition
annotated target: Stage 8 starts with the rapid phase of germ band extension and ends with the beginning of mesodermal segmentation. By the end of this stage germ band extension has progressed to the point where the proctodeal opening is at about 60% egg length and the dorsal folds (transverse furrows) are no longer visible. Duration at 25 degrees C: approximately 30 minutes (190-220 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

embryonic stage 9
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: early extended germ band stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: gastrula stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 8
definition: Stage 9 begins when mesodermal segmentation becomes (transiently) visible, and ends with the appearance of the stomodeal invagination slightly ventral to the anterior pole. Duration at 25 degrees C: approximately 40 minutes (220-260 minutes after egg laying).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005323
comment: Temporal ordering number - 280.

Axiom
annotated source: embryonic stage 9
annotated property: definition
annotated target: Stage 9 begins when mesodermal segmentation becomes (transiently) visible, and ends with the appearance of the stomodeal invagination slightly ventral to the anterior pole. Duration at 25 degrees C: approximately 40 minutes (220-260 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

embryonic stage 10
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: early extended germ band stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 9
definition: Stage 10 begins with the appearance of the stomodeal invagination, slightly ventral to the anterior pole. Periodic furrows appear in the embryonic epidermis around the middle of the stage. The germ band continues to extend, reaching its maximum extent of 75% egg length towards the end of the stage. The end of the stage is marked by the beginning of invagination of the tracheal placodes. Duration at 25 degrees : approximately 60 minutes (260-320 minutes after egg laying).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005324
comment: Temporal ordering number - 290.

Axiom
annotated source: embryonic stage 10
annotated property: definition
annotated target: Stage 10 begins with the appearance of the stomodeal invagination, slightly ventral to the anterior pole. Periodic furrows appear in the embryonic epidermis around the middle of the stage. The germ band continues to extend, reaching its maximum extent of 75% egg length towards the end of the stage. The end of the stage is marked by the beginning of invagination of the tracheal placodes. Duration at 25 degrees : approximately 60 minutes (260-320 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

embryonic stage 11
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: late extended germ band stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 10
subclass of: Restriction
  on property: immediately preceded by
  some values from: early extended germ band stage
definition: Stage 11 begins with the invagination of the tracheal placodes. Para-segmental furrow form and segment boundary furrows become deep folds. Within the head, gnathal protuberances become apparent. The end of this stage is signaled by the appearance of a distinct cleft at the posterior pole of the embryo, which becomes detached from the vitelline membrane. This marks the beginning of germ-band retraction. Duration at 25 degrees C: approximately 120 minutes (320-440 minutes after egg laying).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005325
comment: Temporal ordering number - 310.

Axiom
annotated source: embryonic stage 11
annotated property: definition
annotated target: Stage 11 begins with the invagination of the tracheal placodes. Para-segmental furrow form and segment boundary furrows become deep folds. Within the head, gnathal protuberances become apparent. The end of this stage is signaled by the appearance of a distinct cleft at the posterior pole of the embryo, which becomes detached from the vitelline membrane. This marks the beginning of germ-band retraction. Duration at 25 degrees C: approximately 120 minutes (320-440 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

embryonic stage 12
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: late extended germ band stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 11
definition: Germ band retraction. Stage 12 begins when germ-band retraction starts and ends when this process is complete so that the prospective anal plate occupies the posterior pole. During this stage the posterior and anterior midgut primordia meet and fuse and the tracheal pits fuse to form the tracheal tree. Duration at 25 degrees C: approximately 120 minutes (440-560 minutes after egg laying).
has exact synonym: retracting germ band stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005327
comment: Temporal ordering number - 320.

Axiom
annotated source: embryonic stage 12
annotated property: definition
annotated target: Germ band retraction. Stage 12 begins when germ-band retraction starts and ends when this process is complete so that the prospective anal plate occupies the posterior pole. During this stage the posterior and anterior midgut primordia meet and fuse and the tracheal pits fuse to form the tracheal tree. Duration at 25 degrees C: approximately 120 minutes (440-560 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

embryonic stage 13
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: dorsal closure stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: late extended germ band stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: extended germ band stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 12
definition: Stage 13 begins at the completion of germ-band retraction, when the prospective anal plate occupy the posterior pole. The dorsal ridge becomes apparent externally; the clypeolabrum retracts, leaving a triangular shaped gap at the anterior pole; the labium moves to the ventral midline. This stage ends when head involution begins. Duration at 25 degrees C: Approximately 60 minutes (560-620 minutes after egg laying).
has exact synonym: contracted germ band stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005328
comment: Temporal ordering number - 340.

Axiom
annotated source: embryonic stage 13
annotated property: definition
annotated target: Stage 13 begins at the completion of germ-band retraction, when the prospective anal plate occupy the posterior pole. The dorsal ridge becomes apparent externally; the clypeolabrum retracts, leaving a triangular shaped gap at the anterior pole; the labium moves to the ventral midline. This stage ends when head involution begins. Duration at 25 degrees C: Approximately 60 minutes (560-620 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

embryonic stage 14
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: dorsal closure stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 13
definition: Stage 14 begins with the initiation of head involution. Closure of the midgut around the yolk and dorsal closure continue. Dorsal closure is 80% complete by the end of this stage. This stage ends with the appearance of the second midgut constriction. Duration at 25 degrees C: approximately 60 minutes (620-680 minutes after egg laying).
has exact synonym: head involution stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005330
comment: Temporal ordering number - 350.

Axiom
annotated source: embryonic stage 14
annotated property: definition
annotated target: Stage 14 begins with the initiation of head involution. Closure of the midgut around the yolk and dorsal closure continue. Dorsal closure is 80% complete by the end of this stage. This stage ends with the appearance of the second midgut constriction. Duration at 25 degrees C: approximately 60 minutes (620-680 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

dorsal closure stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: late extended germ band stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: extended germ band stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 12
definition: Stage following germ band retraction, during which dorsal closure happens (Hartenstein, 1993). Dorsal closure occurs by extension of the dorsal epidermal primordium on either side, leading to fusion at the dorsal midline (Campos-Ortega and Hartenstein, 1997). This corresponds to embryonic stages 13-15 (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005331
comment: Temporal ordering number - 330.

Axiom
annotated source: dorsal closure stage
annotated property: definition
annotated target: Stage following germ band retraction, during which dorsal closure happens (Hartenstein, 1993). Dorsal closure occurs by extension of the dorsal epidermal primordium on either side, leading to fusion at the dorsal midline (Campos-Ortega and Hartenstein, 1997). This corresponds to embryonic stages 13-15 (Hartenstein, 1993; Campos-Ortega and Hartenstein, 1997).
database_cross_reference: FlyBase:FBrf0064803
database_cross_reference: FlyBase:FBrf0089570

embryonic stage 15
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: dorsal closure stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 14
definition: Stage 15 begins with the appearance of the second midgut constriction. During this stage the 1st and 3rd midgut constrictions form, dorsal closure is completed, and epidermal segmentation is accomplished. This stage ends when the intersegmental grooves can be distinguished at mid-dorsal level. Duration at 25 degrees C: approximately 100 minutes (680-780 minutes after egg laying).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005332
comment: Temporal ordering number - 360.

Axiom
annotated source: embryonic stage 15
annotated property: definition
annotated target: Stage 15 begins with the appearance of the second midgut constriction. During this stage the 1st and 3rd midgut constrictions form, dorsal closure is completed, and epidermal segmentation is accomplished. This stage ends when the intersegmental grooves can be distinguished at mid-dorsal level. Duration at 25 degrees C: approximately 100 minutes (680-780 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

late embryonic stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: dorsal closure stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 15
definition: Embryonic stages 16-17.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005333
comment: Temporal ordering number - 370.

Axiom
annotated source: late embryonic stage
annotated property: definition
annotated target: Embryonic stages 16-17.
database_cross_reference: FBC:DOS

embryonic stage 16
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: late embryonic stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: dorsal closure stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 15
definition: Stage 16 begins when the intersegmental grooves can be distinguished at mid-dorsal level, and ends when the dorsal ridge (frontal sac) has overgrown the tip of the clypeolabrum, which is thereby enclosed in the atrium. During this stage the ventral cord retracts to about 60% egg length. Duration at 25 degrees C: approximately 180 minutes (780-960 minutes after egg laying).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005334
comment: Temporal ordering number - 380.

Axiom
annotated source: embryonic stage 16
annotated property: definition
annotated target: Stage 16 begins when the intersegmental grooves can be distinguished at mid-dorsal level, and ends when the dorsal ridge (frontal sac) has overgrown the tip of the clypeolabrum, which is thereby enclosed in the atrium. During this stage the ventral cord retracts to about 60% egg length. Duration at 25 degrees C: approximately 180 minutes (780-960 minutes after egg laying).
database_cross_reference: FlyBase:FBrf0089570

embryonic stage 17
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: late embryonic stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 16
definition: Stage 17 begins when the dorsal ridge (frontal sac) has overgrown the tip of the clypeolabrum, which is thereby enclosed in the atrium. It lasts until hatching of the embryo (approximately 24 hours after egg laying), during which time much terminal differentiation occurs, the tracheal tree fills with air, so becoming completely visible, and the ventral cord continues to retract. Duration at 25 degrees C: approximately 8 hours (16-24 hours after egg laying).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005335
comment: Temporal ordering number - 390.

Axiom
annotated source: embryonic stage 17
annotated property: definition
annotated target: Stage 17 begins when the dorsal ridge (frontal sac) has overgrown the tip of the clypeolabrum, which is thereby enclosed in the atrium. It lasts until hatching of the embryo (approximately 24 hours after egg laying), during which time much terminal differentiation occurs, the tracheal tree fills with air, so becoming completely visible, and the ventral cord continues to retract. Duration at 25 degrees C: approximately 8 hours (16-24 hours after egg laying).
database_cross_reference: FlyBase:FBrf0089570

larval stage
type: Class
subclass of: life stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 17
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 17(iv)
subclass of: Restriction
  on property: immediately precedes
  some values from: prepupal stage
subclass of: Restriction
  on property: immediately precedes
  some values from: P-stage
definition: The stage of the Drosophila life-cycle from hatching to the beginning of puparium formation.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005336
comment: Temporal ordering number - 400.

Axiom
annotated source: larval stage
annotated property: definition
annotated target: The stage of the Drosophila life-cycle from hatching to the beginning of puparium formation.
database_cross_reference: FBC:DOS

first instar larval stage
type: Class
subclass of: life stage
subclass of: Restriction
  on property: substage of
  some values from: larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: late embryonic stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 17
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 17(iv)
subclass of: Restriction
  on property: immediately precedes
  some values from: second instar larval stage
definition: The first larval instar begins at hatching and ends at the first larval molt. Anterior spiracles are not yet present; posterior spiracles have two openings each. Salivary glands are very small and all cells are uniform in size. Mouth hooks typically have one tooth. Duration at 25 degrees C: approximately 25 hours (24-49 hours after egg laying; 0-25 hours after hatching).
database_cross_reference: UBERON:8000000
has exact synonym: L1
has exact synonym: first instar larva
has OBO namespace: FlyBase_development_CV
id: FBdv:00005337
comment: Temporal ordering number - 410.

Axiom
annotated source: first instar larval stage
annotated property: definition
annotated target: The first larval instar begins at hatching and ends at the first larval molt. Anterior spiracles are not yet present; posterior spiracles have two openings each. Salivary glands are very small and all cells are uniform in size. Mouth hooks typically have one tooth. Duration at 25 degrees C: approximately 25 hours (24-49 hours after egg laying; 0-25 hours after hatching).
database_cross_reference: FlyBase:FBrf0007733

second instar larval stage
type: Class
subclass of: life stage
subclass of: Restriction
  on property: substage of
  some values from: larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: first instar larval stage
subclass of: Restriction
  on property: immediately precedes
  some values from: third instar larval stage
definition: The second larval instar begins at the first larval molt and ends at the second larval molt. Larvae are actively feeding and crawling in the food. Distinct anterior spiracles are present as enlargements at the end of the tracheal trunk, but not open to the outside; posterior spiracles have three openings each, and four groups of small unbranched hairs. The salivary glands extend to the first abdominal segment, and have cells that are uniform in size. Mouth hooks typically have two or three teeth. Duration at 25 degrees C: approximately 23 hours (49-72 hours after egg laying; 25-48 hours after hatching).
database_cross_reference: UBERON:8000001
has exact synonym: L2
has exact synonym: second instar larva
has OBO namespace: FlyBase_development_CV
id: FBdv:00005338
comment: Temporal ordering number - 420.

Axiom
annotated source: second instar larval stage
annotated property: definition
annotated target: The second larval instar begins at the first larval molt and ends at the second larval molt. Larvae are actively feeding and crawling in the food. Distinct anterior spiracles are present as enlargements at the end of the tracheal trunk, but not open to the outside; posterior spiracles have three openings each, and four groups of small unbranched hairs. The salivary glands extend to the first abdominal segment, and have cells that are uniform in size. Mouth hooks typically have two or three teeth. Duration at 25 degrees C: approximately 23 hours (49-72 hours after egg laying; 25-48 hours after hatching).
database_cross_reference: FlyBase:FBrf0007733

third instar larval stage
type: Class
subclass of: life stage
subclass of: Restriction
  on property: substage of
  some values from: larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: second instar larval stage
subclass of: Restriction
  on property: immediately precedes
  some values from: prepupal stage
subclass of: Restriction
  on property: immediately precedes
  some values from: P-stage
definition: The third larval instar begins at the second larval molt and ends at puparium formation. Anterior spiracles are open to the outside; posterior spiracles have three openings each, and four groups of large branched hairs. The salivary glands extend to the second abdominal segment, with cells larger in the posterior than in the anterior of the gland. Mouth hooks typically have 9-12 teeth. About 24 hours before pupariation (at 25 degree C), larvae stop feeding and climb away from their food. Duration at 25 degrees C: approximately 48 hours (72-120 hours after egg laying; 48-96 hours after hatching).
database_cross_reference: UBERON:8000002
has exact synonym: L3
has OBO namespace: FlyBase_development_CV
has related synonym: third instar larva
id: FBdv:00005339
comment: Temporal ordering number - 430.

Axiom
annotated source: third instar larval stage
annotated property: definition
annotated target: The third larval instar begins at the second larval molt and ends at puparium formation. Anterior spiracles are open to the outside; posterior spiracles have three openings each, and four groups of large branched hairs. The salivary glands extend to the second abdominal segment, with cells larger in the posterior than in the anterior of the gland. Mouth hooks typically have 9-12 teeth. About 24 hours before pupariation (at 25 degree C), larvae stop feeding and climb away from their food. Duration at 25 degrees C: approximately 48 hours (72-120 hours after egg laying; 48-96 hours after hatching).
database_cross_reference: FlyBase:FBrf0007733

early third instar larval stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: third instar larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: second instar larval stage
definition: Third instar larva prior to the wandering stage (approximately the first 24 hours of the third instar larval stage under standard conditions at 25'C.).
contributor: http://orcid.org/0000-0002-7073-9172
date: 2008-11-13T11:51:56Z
has OBO namespace: FlyBase_development_CV
id: FBdv:00005340
comment: Temporal ordering number - 440.

Axiom
annotated source: early third instar larval stage
annotated property: definition
annotated target: Third instar larva prior to the wandering stage (approximately the first 24 hours of the third instar larval stage under standard conditions at 25'C.).
database_cross_reference: FlyBase:FBrf0049147

wandering third instar larval stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: late third instar larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: early third instar larval stage
definition: Stage of the third larval instar during which the larva wanders out of the food and climbs. Under optimum conditions at 25'C, this occurs approximately 24 hours after the start of the third instar larval stage.
contributor: http://orcid.org/0000-0002-7073-9172
date: 2008-11-13T11:55:46Z
has broad synonym: late third instar
has broad synonym: post-feeding larva
has OBO namespace: FlyBase_development_CV
id: FBdv:00005341
comment: Temporal ordering number - 460.

Axiom
annotated source: wandering third instar larval stage
annotated property: definition
annotated target: Stage of the third larval instar during which the larva wanders out of the food and climbs. Under optimum conditions at 25'C, this occurs approximately 24 hours after the start of the third instar larval stage.
database_cross_reference: FlyBase:FBrf0049147

prepupal stage
type: Class
subclass of: life stage
subclass of: Restriction
  on property: substage of
  some values from: P-stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: third instar larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: third instar larval stage L2
subclass of: Restriction
  on property: immediately preceded by
  some values from: late third instar larval stage
subclass of: Restriction
  on property: immediately precedes
  some values from: pupal stage
definition: The prepupal stage begins at puparium formation and ends when larval/pupal apolysis is complete, as indicated by the completion of imaginal head sac eversion and the expulsion of the oral armature of the larva. Duration at 25 degrees C: approximately 12 hours. (120-132.2 hours after egg laying; 0-12.2 hours after puparium formation).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005342
comment: Temporal ordering number - 500.

Axiom
annotated source: prepupal stage
annotated property: definition
annotated target: The prepupal stage begins at puparium formation and ends when larval/pupal apolysis is complete, as indicated by the completion of imaginal head sac eversion and the expulsion of the oral armature of the larva. Duration at 25 degrees C: approximately 12 hours. (120-132.2 hours after egg laying; 0-12.2 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

prepupal stage P1
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: prepupal stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: third instar larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: third instar larval stage L2
subclass of: Restriction
  on property: immediately preceded by
  some values from: late third instar larval stage
definition: Extends from puparium formation through tanning of the pupal cuticle. Posterior spiracles and ridge between anterior spiracles tan orange. Wriggling stops completely. Puparium becomes brown to the unaided eye. Duration at 25 degrees C: approximately 20 minutes. (120-120.3 hours after egg laying; 0-0.3 hours after puparium formation).
has exact synonym: pupal stage P1
has exact synonym: puparium formation
has exact synonym: white puparium stage
has narrow synonym: pupal stage P0
has narrow synonym: white prepupa
has OBO namespace: FlyBase_development_CV
id: FBdv:00005343
comment: Temporal ordering number - 510.

Axiom
annotated source: prepupal stage P1
annotated property: definition
annotated target: Extends from puparium formation through tanning of the pupal cuticle. Posterior spiracles and ridge between anterior spiracles tan orange. Wriggling stops completely. Puparium becomes brown to the unaided eye. Duration at 25 degrees C: approximately 20 minutes. (120-120.3 hours after egg laying; 0-0.3 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: prepupal stage P1
annotated property: hasExactSynonym
annotated target: puparium formation
database_cross_reference: FlyBase:FBrf0036849

Axiom
annotated source: prepupal stage P1
annotated property: hasExactSynonym
annotated target: white puparium stage
database_cross_reference: FlyBase:FBrf0036849

Axiom
annotated source: prepupal stage P1
annotated property: hasNarrowSynonym
annotated target: pupal stage P0
database_cross_reference: FlyBase:FBrf0036849

Axiom
annotated source: prepupal stage P1
annotated property: hasNarrowSynonym
annotated target: white prepupa
database_cross_reference: FlyBase:FBrf0036849

prepupal stage P2
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: prepupal stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: prepupal stage P1
definition: Male gonads become less distinct. Oral armature stops moving permanently. Dorsal medial abdominal contractions stop. Gas bubble becomes visible within abdomen. Duration at 25 degrees C: approximately 100 minutes. (120.3-122 hours after egg laying; 0.3-2 hours after puparium formation).
has exact synonym: brown puparium stage
has exact synonym: pupal stage P2
has OBO namespace: FlyBase_development_CV
id: FBdv:00005344
comment: Temporal ordering number - 520.

Axiom
annotated source: prepupal stage P2
annotated property: definition
annotated target: Male gonads become less distinct. Oral armature stops moving permanently. Dorsal medial abdominal contractions stop. Gas bubble becomes visible within abdomen. Duration at 25 degrees C: approximately 100 minutes. (120.3-122 hours after egg laying; 0.3-2 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: prepupal stage P2
annotated property: hasExactSynonym
annotated target: brown puparium stage
database_cross_reference: FlyBase:FBrf0036849

prepupal stage P3
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: prepupal stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: prepupal stage P2
definition: Ridge of the operculum becomes distinct. Puparium begins to separate from underlying epidermis. Becomes positively buoyant. Duration at 25 degrees C: approximately 4 hours, 45 minutes. (122-126.75 hours after egg laying; 2-6.75 hours after puparium formation).
has exact synonym: bubble prepupa stage
has exact synonym: pupal stage P3
has OBO namespace: FlyBase_development_CV
id: FBdv:00005345
comment: Temporal ordering number - 530.

Axiom
annotated source: prepupal stage P3
annotated property: definition
annotated target: Ridge of the operculum becomes distinct. Puparium begins to separate from underlying epidermis. Becomes positively buoyant. Duration at 25 degrees C: approximately 4 hours, 45 minutes. (122-126.75 hours after egg laying; 2-6.75 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: prepupal stage P3
annotated property: hasExactSynonym
annotated target: bubble prepupa stage
database_cross_reference: FlyBase:FBrf0036849

prepupal stage P4
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: prepupal stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: prepupal stage P3
definition: Prepupal stage P4 begins as the lateral trunk trachea become obscured and ends when the imaginal head sac is everted and the oral armature of the larva is expelled. Duration at 25 degrees C: approximately 5 hours, 30 minutes. (126.75-132.2 hours after egg laying; 6.75-12.2 hours after puparium formation).
has exact synonym: cryptocephalic pupa
has exact synonym: pupal stage P4
has OBO namespace: FlyBase_development_CV
id: FBdv:00005346
comment: Temporal ordering number - 540.

Axiom
annotated source: prepupal stage P4
annotated property: definition
annotated target: Prepupal stage P4 begins as the lateral trunk trachea become obscured and ends when the imaginal head sac is everted and the oral armature of the larva is expelled. Duration at 25 degrees C: approximately 5 hours, 30 minutes. (126.75-132.2 hours after egg laying; 6.75-12.2 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: prepupal stage P4
annotated property: hasExactSynonym
annotated target: cryptocephalic pupa
database_cross_reference: FlyBase:FBrf0036849

prepupal stage P4(i)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: prepupal stage P4
subclass of: Restriction
  on property: immediately preceded by
  some values from: prepupal stage P3
definition: Lateral trunk tracheae become obscured. Dorsal medial abdominal contractions occur. Everted leg and wing discs become visible. Bubble appears in posterior of puparium, displacing the pupa anteriorly; abdominal bubble disappears. Duration at 25 degrees C: approximately 5 hours, 15 minutes. (126.75-132 hours after egg laying; 6.75-12 hours after puparium formation).
has exact synonym: buoyant stage
has exact synonym: pupal stage P4(i)
has OBO namespace: FlyBase_development_CV
id: FBdv:00005347
comment: Temporal ordering number - 550.

Axiom
annotated source: prepupal stage P4(i)
annotated property: definition
annotated target: Lateral trunk tracheae become obscured. Dorsal medial abdominal contractions occur. Everted leg and wing discs become visible. Bubble appears in posterior of puparium, displacing the pupa anteriorly; abdominal bubble disappears. Duration at 25 degrees C: approximately 5 hours, 15 minutes. (126.75-132 hours after egg laying; 6.75-12 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: prepupal stage P4(i)
annotated property: hasExactSynonym
annotated target: buoyant stage
database_cross_reference: FlyBase:FBrf0036849

prepupal stage P4(ii)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: prepupal stage P4
subclass of: Restriction
  on property: immediately preceded by
  some values from: prepupal stage P4(i)
definition: Bubble is displaced to anterior end of the puparium, and pupa withdraws to the posterior end. Imaginal head sac is everted and the oral armature of the larva is expelled. Duration at 25 degrees C: approximately 12 minutes. (132-132.2 hours after egg laying; 12-12.2 hours after puparium formation).
has exact synonym: moving bubble stage
has exact synonym: pupal stage P4(ii)
has OBO namespace: FlyBase_development_CV
id: FBdv:00005348
comment: Temporal ordering number - 560.

Axiom
annotated source: prepupal stage P4(ii)
annotated property: definition
annotated target: Bubble is displaced to anterior end of the puparium, and pupa withdraws to the posterior end. Imaginal head sac is everted and the oral armature of the larva is expelled. Duration at 25 degrees C: approximately 12 minutes. (132-132.2 hours after egg laying; 12-12.2 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: prepupal stage P4(ii)
annotated property: hasExactSynonym
annotated target: moving bubble stage
database_cross_reference: FlyBase:FBrf0036849

pupal stage
type: Class
subclass of: life stage
subclass of: Restriction
  on property: substage of
  some values from: P-stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: prepupal stage
subclass of: Restriction
  on property: immediately precedes
  some values from: pharate adult stage
definition: The pupal stage starts once larval/pupal apolysis is complete as indicated by the expulsion of the larval armature. Early in this stage, the legs and wings reach full extension along the abdomen. The stage ends when the pupal cuticle separates from the underlying epidermis (pupal/adult apolysis), and the eye cup becomes yellow at its periphery. Duration at 25 degrees C: approximately 32 hours. (132.2-164.3 hours after egg laying; 12.2-44.3 hours after puparium formation).
has exact synonym: phanerocephalic pupa
has OBO namespace: FlyBase_development_CV
id: FBdv:00005349
comment: Temporal ordering number - 570. DISAMBIGUATION: In Drosophila lab vernacular, the term 'pupal stage' is often used to refer to the entire period from formation of the puparium to eclosion. However, this does not correspond to the standard usage of 'pupal stage' for Cyclorrhaphous flies (for discussion see: FBrf0087128). Briefly: formation of the puparium (hardening of the larval cuticle) marks the beginning of the pre-pupal stage. The pupal stage begins following pupal/larval apolysis - detachment of the larval epidermis from the puparium. In Drosophila, the outward sign of the completion of apolysis is the eversion of the head and expulsion of the larval mouthparts (FBrf0036849). We use P-stage to refer to the stage from pupariation to eclosion, and restrict pupal stage to its standard usage.

Axiom
annotated source: pupal stage
annotated property: definition
annotated target: The pupal stage starts once larval/pupal apolysis is complete as indicated by the expulsion of the larval armature. Early in this stage, the legs and wings reach full extension along the abdomen. The stage ends when the pupal cuticle separates from the underlying epidermis (pupal/adult apolysis), and the eye cup becomes yellow at its periphery. Duration at 25 degrees C: approximately 32 hours. (132.2-164.3 hours after egg laying; 12.2-44.3 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pupal stage
annotated property: hasExactSynonym
annotated target: phanerocephalic pupa
database_cross_reference: FlyBase:FBrf0036849

pupal stage P5
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pupal stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: prepupal stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: prepupal stage P4
subclass of: Restriction
  on property: immediately preceded by
  some values from: prepupal stage P4(ii)
definition: Pupal stage P5 starts when the legs and wings reach full extension along the abdomen and ends as the Malpighian tubules become prominent and green. Duration at 25 degrees C: approximately 6 hours, 30 minutes. (132.2-138.7 hours after egg laying; 12.2-18.7 hours after puparium formation).
has OBO namespace: FlyBase_development_CV
id: FBdv:00005350
comment: Temporal ordering number - 580.

Axiom
annotated source: pupal stage P5
annotated property: definition
annotated target: Pupal stage P5 starts when the legs and wings reach full extension along the abdomen and ends as the Malpighian tubules become prominent and green. Duration at 25 degrees C: approximately 6 hours, 30 minutes. (132.2-138.7 hours after egg laying; 12.2-18.7 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

pupal stage P5(i)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pupal stage P5
subclass of: Restriction
  on property: immediately preceded by
  some values from: prepupal stage P4
subclass of: Restriction
  on property: immediately preceded by
  some values from: prepupal stage P4(ii)
definition: Legs and wings reach full extension along abdomen. Enlarged initial segments of anterior pair Malpighian tubules move from thorax into abdomen. Translucent patch that lacks adhering fat body cells becomes discernible in the middle of the eye region. Pair of white Malpighian tubules becomes visible dorsally in the abdomen. Duration at 25 degrees C: approximately 66 minutes. (132.2-133.3 hours after egg laying; 12.2-13.3 hours after puparium formation).
has exact synonym: Malpighian tubules migrating
has OBO namespace: FlyBase_development_CV
id: FBdv:00005351
comment: Temporal ordering number - 590.

Axiom
annotated source: pupal stage P5(i)
annotated property: definition
annotated target: Legs and wings reach full extension along abdomen. Enlarged initial segments of anterior pair Malpighian tubules move from thorax into abdomen. Translucent patch that lacks adhering fat body cells becomes discernible in the middle of the eye region. Pair of white Malpighian tubules becomes visible dorsally in the abdomen. Duration at 25 degrees C: approximately 66 minutes. (132.2-133.3 hours after egg laying; 12.2-13.3 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pupal stage P5(i)
annotated property: hasExactSynonym
annotated target: Malpighian tubules migrating
database_cross_reference: FlyBase:FBrf0036849

pupal stage P5(ii)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pupal stage P5
subclass of: Restriction
  on property: immediately preceded by
  some values from: pupal stage P5(i)
definition: Malpighian tubules become prominent and green. Duration at 25 degrees C: approximately 5 hours, 25 minutes. (133.3-138.7 hours after egg laying; 13.3-18.7 hours after puparium formation).
has exact synonym: white Malpighian tubules stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005352
comment: Temporal ordering number - 600.

Axiom
annotated source: pupal stage P5(ii)
annotated property: definition
annotated target: Malpighian tubules become prominent and green. Duration at 25 degrees C: approximately 5 hours, 25 minutes. (133.3-138.7 hours after egg laying; 13.3-18.7 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pupal stage P5(ii)
annotated property: hasExactSynonym
annotated target: white Malpighian tubules stage
database_cross_reference: FlyBase:FBrf0036849

pupal stage P6
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pupal stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pupal stage P5
subclass of: Restriction
  on property: immediately preceded by
  some values from: pupal stage P5(ii)
definition: Dark green 'yellow body' appears between the anterior ends of the two Malpighian tubule segments, mid-dorsally at the anterior of the abdomen. Duration at 25 degrees C: approximately 13 hours, 45 minutes. (138.7-152.4 hours after egg laying; 18.7-32.4 hours after puparium formation).
has exact synonym: green Malpighian tubules stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005353
comment: Temporal ordering number - 610.

Axiom
annotated source: pupal stage P6
annotated property: definition
annotated target: Dark green 'yellow body' appears between the anterior ends of the two Malpighian tubule segments, mid-dorsally at the anterior of the abdomen. Duration at 25 degrees C: approximately 13 hours, 45 minutes. (138.7-152.4 hours after egg laying; 18.7-32.4 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pupal stage P6
annotated property: hasExactSynonym
annotated target: green Malpighian tubules stage
database_cross_reference: FlyBase:FBrf0036849

pupal stage P7
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pupal stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pupal stage P6
definition: The 'yellow body' moves back between the Malpighian tubules. The transparent pupal cuticle separates from the underlying epidermis. Eye cup becomes yellow at its perimeter. Duration at 25 degrees C: approximately 12 hours. (152.4-164.3 hours after egg laying; 32.4-44.3 hours after puparium formation).
has exact synonym: yellow body stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005354
comment: Temporal ordering number - 620.

Axiom
annotated source: pupal stage P7
annotated property: definition
annotated target: The 'yellow body' moves back between the Malpighian tubules. The transparent pupal cuticle separates from the underlying epidermis. Eye cup becomes yellow at its perimeter. Duration at 25 degrees C: approximately 12 hours. (152.4-164.3 hours after egg laying; 32.4-44.3 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pupal stage P7
annotated property: hasExactSynonym
annotated target: yellow body stage
database_cross_reference: FlyBase:FBrf0036849

pharate adult stage P8
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pupal stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pupal stage P7
definition: Pale yellow pigmentation spreads inwards across the eye. Eye color becomes bright yellow, then changes to amber. Duration at 25 degrees C: approximately 12 hours 20 minutes. (164.3-176.6 hours after egg laying; 44.3-56.6 hours after puparium formation).
has exact synonym: pupal stage P8
has exact synonym: yellow-eyed stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005355
comment: Temporal ordering number - 630.

Axiom
annotated source: pharate adult stage P8
annotated property: definition
annotated target: Pale yellow pigmentation spreads inwards across the eye. Eye color becomes bright yellow, then changes to amber. Duration at 25 degrees C: approximately 12 hours 20 minutes. (164.3-176.6 hours after egg laying; 44.3-56.6 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pharate adult stage P8
annotated property: hasExactSynonym
annotated target: yellow-eyed stage
database_cross_reference: FlyBase:FBrf0036849

pharate adult stage P9
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P8
definition: Eye color darkens to deep amber, then becomes pale pink. Duration at 25 degrees C: approximately 18 hours. (176.6-194.5 hours after egg laying; 56.6-74.5 hours after puparium formation).
has exact synonym: amber-eyed stage
has exact synonym: pupal stage P9
has OBO namespace: FlyBase_development_CV
id: FBdv:00005356
comment: Temporal ordering number - 640.

Axiom
annotated source: pharate adult stage P9
annotated property: definition
annotated target: Eye color darkens to deep amber, then becomes pale pink. Duration at 25 degrees C: approximately 18 hours. (176.6-194.5 hours after egg laying; 56.6-74.5 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pharate adult stage P9
annotated property: hasExactSynonym
annotated target: amber-eyed stage
database_cross_reference: FlyBase:FBrf0036849

pharate adult stage P10
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P9
definition: Eyes become bright red. Orbital and ocellar bristles and vibrissae darken. Duration at 25 degrees C: approximately 6 minutes. (194.5-194.6 hours after egg laying; 74.5-74.6 hours after puparium formation).
has exact synonym: pupal stage P10
has exact synonym: red-eye bald stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005357
comment: Temporal ordering number - 650.

Axiom
annotated source: pharate adult stage P10
annotated property: definition
annotated target: Eyes become bright red. Orbital and ocellar bristles and vibrissae darken. Duration at 25 degrees C: approximately 6 minutes. (194.5-194.6 hours after egg laying; 74.5-74.6 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pharate adult stage P10
annotated property: hasExactSynonym
annotated target: red-eye bald stage
database_cross_reference: FlyBase:FBrf0036849

pharate adult stage P11
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P10
definition: Thoracic bristles become visible, and the tips of the wings turn grey. Duration at 25 degrees C: approximately 2 hours. (194.6-196.6 hours after egg laying; 74.6-76.6 hours after puparium formation).
has exact synonym: pupal stage P11
has OBO namespace: FlyBase_development_CV
id: FBdv:00005358
comment: Temporal ordering number - 660.

Axiom
annotated source: pharate adult stage P11
annotated property: definition
annotated target: Thoracic bristles become visible, and the tips of the wings turn grey. Duration at 25 degrees C: approximately 2 hours. (194.6-196.6 hours after egg laying; 74.6-76.6 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

pharate adult stage P11(i)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage P11
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P10
definition: Dorsal thoracic microchaetes and macrochaetes become visible. Duration at 25 degrees C: approximately 80 minutes (194.6-195.5 hours after egg laying; 74.6-75.9 hours after puparium formation).
has exact synonym: head bristles stage
has exact synonym: pupal stage P11(i)
has OBO namespace: FlyBase_development_CV
id: FBdv:00005359
comment: Temporal ordering number - 670.

Axiom
annotated source: pharate adult stage P11(i)
annotated property: definition
annotated target: Dorsal thoracic microchaetes and macrochaetes become visible. Duration at 25 degrees C: approximately 80 minutes (194.6-195.5 hours after egg laying; 74.6-75.9 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pharate adult stage P11(i)
annotated property: hasExactSynonym
annotated target: head bristles stage
database_cross_reference: FlyBase:FBrf0036849

pharate adult stage P11(ii)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage P11
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P11(i)
definition: Tips of folded wings become grey. Duration at 25 degrees C: approximately 45 minutes (195.5-196.6 hours after egg laying; 75.9-76.6 hours after puparium formation).
has exact synonym: pupal stage P11(ii)
has exact synonym: thoracic bristles stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005360
comment: Temporal ordering number - 680.

Axiom
annotated source: pharate adult stage P11(ii)
annotated property: definition
annotated target: Tips of folded wings become grey. Duration at 25 degrees C: approximately 45 minutes (195.5-196.6 hours after egg laying; 75.9-76.6 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pharate adult stage P11(ii)
annotated property: hasExactSynonym
annotated target: thoracic bristles stage
database_cross_reference: FlyBase:FBrf0036849

pharate adult stage P12
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P11
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P11(ii)
definition: Pharate adult stage P12 begins as the abdominal tergite bristles become visible, and ends as the wings darken to black. Duration at 25 degrees C: approximately 2 hours. (196.6-198.6 hours after egg laying; 76.6-78.6 hours after puparium formation).
has exact synonym: pupal stage P12
has OBO namespace: FlyBase_development_CV
id: FBdv:00005361
comment: Temporal ordering number - 690.

Axiom
annotated source: pharate adult stage P12
annotated property: definition
annotated target: Pharate adult stage P12 begins as the abdominal tergite bristles become visible, and ends as the wings darken to black. Duration at 25 degrees C: approximately 2 hours. (196.6-198.6 hours after egg laying; 76.6-78.6 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

pharate adult stage P12(i)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage P12
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P11
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P11(ii)
definition: Bristles of the abdominal tergites become visible, and the wings become grey. Duration at 25 degrees C: approximately 55 minutes. (196.6-197.5 hours after egg laying; 76.6-77.5 hours after puparium formation).
has exact synonym: pupal stage P12(i)
has exact synonym: wing tips grey stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005362
comment: Temporal ordering number - 700.

Axiom
annotated source: pharate adult stage P12(i)
annotated property: definition
annotated target: Bristles of the abdominal tergites become visible, and the wings become grey. Duration at 25 degrees C: approximately 55 minutes. (196.6-197.5 hours after egg laying; 76.6-77.5 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pharate adult stage P12(i)
annotated property: hasExactSynonym
annotated target: wing tips grey stage
database_cross_reference: FlyBase:FBrf0036849

pharate adult stage P12(ii)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage P12
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P12(i)
definition: Sex combs darken in males. Wings darken to black. Duration at 25 degrees C: approximately 65 minutes. (197.5-198.6 hours after egg laying; 77.5-78.6 hours after puparium formation).
has exact synonym: pupal stage P12(ii)
has exact synonym: wings grey stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005363
comment: Temporal ordering number - 710.

Axiom
annotated source: pharate adult stage P12(ii)
annotated property: definition
annotated target: Sex combs darken in males. Wings darken to black. Duration at 25 degrees C: approximately 65 minutes. (197.5-198.6 hours after egg laying; 77.5-78.6 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pharate adult stage P12(ii)
annotated property: hasExactSynonym
annotated target: wings grey stage
database_cross_reference: FlyBase:FBrf0036849

pharate adult stage P13
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P12
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P12(ii)
definition: Tarsal bristles darken and claws become black. Duration at 25 degrees C: approximately 3 hours, 20 minutes. (198.6-201.9 hours after egg laying; 78.6-81.9 hours after puparium formation).
has exact synonym: pupal stage P13
has exact synonym: wings black stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00005364
comment: Temporal ordering number - 720.

Axiom
annotated source: pharate adult stage P13
annotated property: definition
annotated target: Tarsal bristles darken and claws become black. Duration at 25 degrees C: approximately 3 hours, 20 minutes. (198.6-201.9 hours after egg laying; 78.6-81.9 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pharate adult stage P13
annotated property: hasExactSynonym
annotated target: wings black stage
database_cross_reference: FlyBase:FBrf0036849

pharate adult stage P14
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P13
definition: The meconium appears dorsally at the posterior tip of the abdomen. Duration at 25 degrees C: approximately 9 hours, 30 minutes (201.9-211.5 hours after egg laying; 81.9-91.5 hours after puparium formation).
has exact synonym: mature bristles stage
has exact synonym: pupal stage P14
has OBO namespace: FlyBase_development_CV
id: FBdv:00005365
comment: Temporal ordering number - 730.

Axiom
annotated source: pharate adult stage P14
annotated property: definition
annotated target: The meconium appears dorsally at the posterior tip of the abdomen. Duration at 25 degrees C: approximately 9 hours, 30 minutes (201.9-211.5 hours after egg laying; 81.9-91.5 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pharate adult stage P14
annotated property: hasExactSynonym
annotated target: mature bristles stage
database_cross_reference: FlyBase:FBrf0036849

pharate adult stage P15
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P14
definition: Pharate adult stage P15 begins with the tanning of the tergites and ends with eclosion. Duration at 25 degrees C: approximately 8 hours, 30 minutes. (211.5-220 hours after egg laying; 91.5-100 hours after puparium formation).
has exact synonym: pupal stage P15
has OBO namespace: FlyBase_development_CV
id: FBdv:00005366
comment: Temporal ordering number - 740.

Axiom
annotated source: pharate adult stage P15
annotated property: definition
annotated target: Pharate adult stage P15 begins with the tanning of the tergites and ends with eclosion. Duration at 25 degrees C: approximately 8 hours, 30 minutes. (211.5-220 hours after egg laying; 91.5-100 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

pharate adult stage P15(i)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage P15
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P14
definition: Tanning of the tergites obscures the Malpighian tubules and the 'yellow body'. Legs begin to twitch; fly is able to walk if puparium is removed prematurely. Ptilinum expands by hydrostatic pressure, opening the operculum. Duration at 25 degrees C: approximately 8 hours, 6 minutes. (211.5-219.6 hours after egg laying; 91.5-99.6 hours after puparium formation).
has exact synonym: meconium stage
has exact synonym: pupal stage P15(i)
has OBO namespace: FlyBase_development_CV
id: FBdv:00005367
comment: Temporal ordering number - 750.

Axiom
annotated source: pharate adult stage P15(i)
annotated property: definition
annotated target: Tanning of the tergites obscures the Malpighian tubules and the 'yellow body'. Legs begin to twitch; fly is able to walk if puparium is removed prematurely. Ptilinum expands by hydrostatic pressure, opening the operculum. Duration at 25 degrees C: approximately 8 hours, 6 minutes. (211.5-219.6 hours after egg laying; 91.5-99.6 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pharate adult stage P15(i)
annotated property: hasExactSynonym
annotated target: meconium stage
database_cross_reference: FlyBase:FBrf0036849

pharate adult stage P15(ii)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: pharate adult stage P15
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P15(i)
definition: Stage which starts when the operculum opens and ends when eclosion is completed. Duration at 25 degrees C: approximately 24 minutes. (219.6-220 hours after egg laying; 99.6-100 hours after puparium formation).
has exact synonym: eclosion stage
has exact synonym: pupal stage P15(ii)
has OBO namespace: FlyBase_development_CV
id: FBdv:00005368
comment: Temporal ordering number - 760.

Axiom
annotated source: pharate adult stage P15(ii)
annotated property: definition
annotated target: Stage which starts when the operculum opens and ends when eclosion is completed. Duration at 25 degrees C: approximately 24 minutes. (219.6-220 hours after egg laying; 99.6-100 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355

Axiom
annotated source: pharate adult stage P15(ii)
annotated property: hasExactSynonym
annotated target: eclosion stage
database_cross_reference: FlyBase:FBrf0036849

adult stage
type: Class
subclass of: life stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P15
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P15(ii)
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: P-stage
definition: The stage of the Drosophila life-cycle from eclosion to death.
has OBO namespace: FlyBase_development_CV
id: FBdv:00005369
comment: Temporal ordering number - 770.

Axiom
annotated source: adult stage
annotated property: definition
annotated target: The stage of the Drosophila life-cycle from eclosion to death.
database_cross_reference: FBC:DOS

adult stage A1
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: immature adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P15(ii)
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: P-stage
subclass of: Restriction
  on property: immediately precedes
  some values from: adult stage A2
definition: Newly eclosed adult stage. Animal free of pupal case. Runs rapidly to find site for wing expansion. Wings are folded back and black against a very pale abdomen.
has alternative id: FBdv:00005373
has OBO namespace: FlyBase_development_CV
has related synonym: adult stage I
id: FBdv:00005370
comment: Temporal ordering number - 785. The time at which eclosed flies settle down for wing expansion can vary greatly. If they fail to find a suitable site then expansion can be delayed by several hours.

Axiom
annotated source: adult stage A1
annotated property: definition
annotated target: Newly eclosed adult stage. Animal free of pupal case. Runs rapidly to find site for wing expansion. Wings are folded back and black against a very pale abdomen.
database_cross_reference: FlyBase:FBrf0049147

adult stage A2
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: immature adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: adult stage A1
subclass of: Restriction
  on property: immediately precedes
  some values from: adult stage A3
definition: Stage, shortly after eclosion, during which the wings expand. During wing expansion, the abdomen pulsates and the hind legs stroke the wings vigorously for several minutes at a time. The stage ends when the wings are folded down over the abdomen, which has become broader and shorter, and the wing cuticle has lost its folds. The stage lasts around 15 minutes at 25'C.
has alternative id: FBdv:00005374
has OBO namespace: FlyBase_development_CV
has related synonym: adult stage II
id: FBdv:00005371
comment: Temporal ordering number - 790.

Axiom
annotated source: adult stage A2
annotated property: definition
annotated target: Stage, shortly after eclosion, during which the wings expand. During wing expansion, the abdomen pulsates and the hind legs stroke the wings vigorously for several minutes at a time. The stage ends when the wings are folded down over the abdomen, which has become broader and shorter, and the wing cuticle has lost its folds. The stage lasts around 15 minutes at 25'C.
database_cross_reference: FlyBase:FBrf0049147

pharate adult stage
type: Class
subclass of: life stage
subclass of: Restriction
  on property: substage of
  some values from: P-stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pupal stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pupal stage P7
subclass of: Restriction
  on property: immediately precedes
  some values from: adult stage
subclass of: Restriction
  on property: immediately precedes
  some values from: adult stage A1
subclass of: Restriction
  on property: immediately precedes
  some values from: immature adult stage
definition: The developing adult after pupal-adult apolysis, i.e.- from stage P8 (when yellow eye color first becomes visible through the pupal case), to eclosion. Duration at 25 degrees C: approximately 55.7 hours (164.3-220 hours after egg laying; 44.3-100 hours after puparium formation).
has OBO namespace: FlyBase_development_CV
id: FBdv:00006011
comment: Temporal ordering number - 625.

Axiom
annotated source: pharate adult stage
annotated property: definition
annotated target: The developing adult after pupal-adult apolysis, i.e.- from stage P8 (when yellow eye color first becomes visible through the pupal case), to eclosion. Duration at 25 degrees C: approximately 55.7 hours (164.3-220 hours after egg laying; 44.3-100 hours after puparium formation).
database_cross_reference: FlyBase:FBrf0036849
database_cross_reference: FlyBase:FBrf0048355
database_cross_reference: FlyBase:FBrf0049147

adult stage A3
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: immature adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: adult stage A2
subclass of: Restriction
  on property: immediately precedes
  some values from: mature adult stage
definition: Adult stage immediately after wing expansion, during which tanning of the cuticle is completed. This stage lasts approximately 45 minutes at 25'C.
has alternative id: FBdv:00005375
has OBO namespace: FlyBase_development_CV
has related synonym: adult stage III
id: FBdv:00006012
comment: Temporal ordering number - 800.

Axiom
annotated source: adult stage A3
annotated property: definition
annotated target: Adult stage immediately after wing expansion, during which tanning of the cuticle is completed. This stage lasts approximately 45 minutes at 25'C.
database_cross_reference: FlyBase:FBrf0049147

P-stage
type: Class
subclass of: life stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: third instar larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: third instar larval stage L2
subclass of: Restriction
  on property: immediately preceded by
  some values from: late third instar larval stage
subclass of: Restriction
  on property: immediately precedes
  some values from: adult stage
subclass of: Restriction
  on property: immediately precedes
  some values from: adult stage A1
subclass of: Restriction
  on property: immediately precedes
  some values from: immature adult stage
definition: The stage of the Drosophila life-cycle from the formation of the puparium (beginning of the prepupal stage) to eclosion.
contributor: http://orcid.org/0000-0002-7073-9172
date: 2008-06-05T04:51:40Z
has broad synonym: metamorphosis
has OBO namespace: FlyBase_development_CV
has related synonym: pupal stage
id: FBdv:00007001
comment: Temporal ordering number - 490. DISAMBIGUATION: In Drosophila lab vernacular, the term 'pupal stage' is often used to refer to the entire period from formation of the puparium to eclosion. However, this does not correspond to the standard usage of 'pupal stage' for cyclorrhaphous flies (for discussion see: FBrf0087128). Briefly: formation of the puparium (hardening of the larval cuticle) marks the beginning of the pre-pupal stage. The pupal stage begins following pupal/larval apolysis - detachment of the larval epidermis from the puparium. In Drosophila, the outward sign of the completion of apolysis is the eversion of the head an expulsion of the larval mouthparts (FBrf0036849). We use P-stage to refer to the stage from pupariation to eclosion, and restrict pupal stage to its standard usage.

Axiom
annotated source: P-stage
annotated property: definition
annotated target: The stage of the Drosophila life-cycle from the formation of the puparium (beginning of the prepupal stage) to eclosion.
database_cross_reference: FBC:DOS

third instar larval stage L1
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: late third instar larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: wandering third instar larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: third instar - cleared gut stage
definition: Stage which begins when wandering third instar larva stops crawling. The larva everts its anterior spiracles during this stage.
has OBO namespace: FlyBase_development_CV
id: FBdv:00007004
comment: Temporal ordering number - 470.

Axiom
annotated source: third instar larval stage L1
annotated property: definition
annotated target: Stage which begins when wandering third instar larva stops crawling. The larva everts its anterior spiracles during this stage.
database_cross_reference: FlyBase:FBrf0036849

third instar larval stage L2
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: late third instar larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: third instar larval stage L1
definition: The anterior spiracles are fully everted, with 7-9 finger-like projections. The body shortens, withdrawing three apparent abdominal segments and the larva sticks to its substrate.
has exact synonym: spiracles everted larva
has OBO namespace: FlyBase_development_CV
has related synonym: white prepupa
id: FBdv:00007005
comment: Temporal ordering number - 480.

Axiom
annotated source: third instar larval stage L2
annotated property: definition
annotated target: The anterior spiracles are fully everted, with 7-9 finger-like projections. The body shortens, withdrawing three apparent abdominal segments and the larva sticks to its substrate.
database_cross_reference: FlyBase:FBrf0036849

Axiom
annotated source: third instar larval stage L2
annotated property: hasExactSynonym
annotated target: spiracles everted larva
database_cross_reference: FlyBase:FBrf0036849

Axiom
annotated source: third instar larval stage L2
annotated property: hasRelatedSynonym
annotated target: white prepupa
database_cross_reference: FlyBase:FBrf0036849

late third instar larval stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: third instar larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: early third instar larval stage
definition: Third instar larva from the beginning of wandering to the beginning of puparium formation.
contributor: http://orcid.org/0000-0002-7073-9172
date: 2008-12-11T01:19:53Z
has OBO namespace: FlyBase_development_CV
id: FBdv:00007007
comment: Temporal ordering number - 450.

Axiom
annotated source: late third instar larval stage
annotated property: definition
annotated target: Third instar larva from the beginning of wandering to the beginning of puparium formation.
database_cross_reference: FBC:DOS

developmental process
type: Class
subclass of: biological process
definition: A biological process whose specific outcome is the progression of an integrated living unit (an anatomical structure or an entire organism) over time from an initial condition to a later condition.
contributor: http://orcid.org/0000-0002-7073-9172
date: 2009-10-01T05:56:42Z
database_cross_reference: GO:0032502
has OBO namespace: FlyBase_development_CV
id: FBdv:00007009

Axiom
annotated source: developmental process
annotated property: definition
annotated target: A biological process whose specific outcome is the progression of an integrated living unit (an anatomical structure or an entire organism) over time from an initial condition to a later condition.
database_cross_reference: GO:0032502

embryonic cycle
type: Class
subclass of: biological process
subclass of: GO_0045448
definition: A cycle of nuclear division during the embryogenesis of Drosophila melanogaster. The first 13 cycles are synchronous throughout the embryo and occur their timing relative to other developmental processes is invariant. Later nuclear division cycles are asynchronous across the embryo although may be more locally synchronized.
contributor: http://orcid.org/0000-0002-7073-9172
date: 2009-10-01T05:57:41Z
has OBO namespace: FlyBase_development_CV
id: FBdv:00007011

Axiom
annotated source: embryonic cycle
annotated property: definition
annotated target: A cycle of nuclear division during the embryogenesis of Drosophila melanogaster. The first 13 cycles are synchronous throughout the embryo and occur their timing relative to other developmental processes is invariant. Later nuclear division cycles are asynchronous across the embryo although may be more locally synchronized.
database_cross_reference: FlyBase:FBrf0049535
database_cross_reference: FlyBase:FBrf0089570

life stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: Drosophila life
definition: A temporal subdivision of a Drosophila life, delimited by major transitions in the circumstances of the organism, such as: fertilization; hatching; pupal ecdysis; eclosion.
contributor: http://orcid.org/0000-0002-7073-9172
date: 2009-10-01T05:59:22Z
has exact synonym: life cycle stage
has OBO namespace: FlyBase_development_CV
id: FBdv:00007012

Axiom
annotated source: life stage
annotated property: definition
annotated target: A temporal subdivision of a Drosophila life, delimited by major transitions in the circumstances of the organism, such as: fertilization; hatching; pupal ecdysis; eclosion.
database_cross_reference: FBC:DOS

age
type: Class
subclass of: BFO_0000003
definition: Temporal subdivision of life based on time elapsed since some key developmental transition, such as fertilization, hatching or eclosion.
contributor: http://orcid.org/0000-0002-7073-9172
date: 2010-09-29T12:25:36Z
has OBO namespace: FlyBase_development_CV
id: FBdv:00007013

Axiom
annotated source: age
annotated property: definition
annotated target: Temporal subdivision of life based on time elapsed since some key developmental transition, such as fertilization, hatching or eclosion.
database_cross_reference: FBC:DOS

adult age in days
type: Class
subclass of: age
definition: Temporal subdivision of adulthood in days post-eclosion.
contributor: http://orcid.org/0000-0002-7073-9172
date: 2010-09-29T12:28:05Z
has OBO namespace: FlyBase_development_CV
id: FBdv:00007014

Axiom
annotated source: adult age in days
annotated property: definition
annotated target: Temporal subdivision of adulthood in days post-eclosion.
database_cross_reference: FBC:DOS

embryonic stage 17(i)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 17
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 16
definition: The first two hours of embryonic stage 17 at 25'C. (Approximately 16-18 hours at 25'C after egg laying).
contributor: http://orcid.org/0000-0002-7073-9172
date: 2011-04-26T11:57:15Z
has OBO namespace: FlyBase_development_CV
id: FBdv:00007015
comment: Temporal ordering number - 391. Should not be used to stage embryos whose development is at temperatures other than 25'C.

Axiom
annotated source: embryonic stage 17(i)
annotated property: definition
annotated target: The first two hours of embryonic stage 17 at 25'C. (Approximately 16-18 hours at 25'C after egg laying).
database_cross_reference: FBC:DOS

embryonic stage 17(ii)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 17
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 17(i)
definition: Hours 2-4 of embryonic stage 17 at 25'C. (Approximately 18-20 hours at 25'C after egg laying).
contributor: http://orcid.org/0000-0002-7073-9172
date: 2011-04-26T12:00:15Z
has OBO namespace: FlyBase_development_CV
id: FBdv:00007016
comment: Temporal ordering number - 392. Should not be used to stage embryos whose development is at temperatures other than 25'C.

Axiom
annotated source: embryonic stage 17(ii)
annotated property: definition
annotated target: Hours 2-4 of embryonic stage 17 at 25'C. (Approximately 18-20 hours at 25'C after egg laying).
database_cross_reference: FBC:DOS

embryonic stage 17(iii)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 17
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 17(ii)
definition: Hours 4-6 of embryonic stage 17 at 25'C. (Approximately 20-22 hours at 25'C after egg laying).
contributor: http://orcid.org/0000-0002-7073-9172
date: 2011-04-26T12:01:18Z
has OBO namespace: FlyBase_development_CV
id: FBdv:00007017
comment: Temporal ordering number - 393. Should not be used to stage embryos whose development is at temperatures other than 25'C.

Axiom
annotated source: embryonic stage 17(iii)
annotated property: definition
annotated target: Hours 4-6 of embryonic stage 17 at 25'C. (Approximately 20-22 hours at 25'C after egg laying).
database_cross_reference: FBC:DOS

embryonic stage 17(iv)
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: embryonic stage 17
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 17(iii)
definition: Hours 6-8 (the last two hours) of embryonic stage 17 at 25'C. (Approximately 22-24 hours at 25'C after egg laying).
contributor: http://orcid.org/0000-0002-7073-9172
date: 2011-04-26T12:03:14Z
has OBO namespace: FlyBase_development_CV
id: FBdv:00007018
comment: Temporal ordering number - 394. Should not be used to stage embryos whose development is at temperatures other than 25'C.

Axiom
annotated source: embryonic stage 17(iv)
annotated property: definition
annotated target: Hours 6-8 (the last two hours) of embryonic stage 17 at 25'C. (Approximately 22-24 hours at 25'C after egg laying).
database_cross_reference: FBC:DOS

third instar - uncleared gut stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: wandering third instar larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: early third instar larval stage
definition: The substage of the wandering third instar larval stage, prior to the beginning of clearance of the gut.
has OBO namespace: FlyBase_development_CV
id: FBdv:00007019
comment: Temporal ordering number - 462. This is commonly assayed by adding 0.5% bromophenol blue to the food and looking for wandering third instar larvae with the same color guts (dark blue) as feeding larvae (Andres and Thummel, 1994). Larvae at this stage are in chromosomal puff stage 1 (Andres and Thummel, 1994).

Axiom
annotated source: third instar - uncleared gut stage
annotated property: definition
annotated target: The substage of the wandering third instar larval stage, prior to the beginning of clearance of the gut.
database_cross_reference: FlyBase:FBrf0076598

third instar - partially cleared gut stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: wandering third instar larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: third instar - uncleared gut stage
definition: The substage of the wandering third instar larval stage when the larva has partially cleared its gut contents.
has OBO namespace: FlyBase_development_CV
id: FBdv:00007020
comment: Temporal ordering number - 465. This is commonly assayed by adding 0.5% bromophenol blue to the food and looking for wandering third instar larvae with lighter colored guts (light blue) than feeding larvae (Andres and Thummel, 1994). Larvae at this stage are mainly in chromosomal puff stages 2-7 (Andres and Thummel, 1994).

Axiom
annotated source: third instar - partially cleared gut stage
annotated property: definition
annotated target: The substage of the wandering third instar larval stage when the larva has partially cleared its gut contents.
database_cross_reference: FlyBase:FBrf0076598

third instar - cleared gut stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: wandering third instar larval stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: third instar - partially cleared gut stage
definition: The substage of the wandering third instar larval stage when the larva has cleared its gut contents.
has OBO namespace: FlyBase_development_CV
id: FBdv:00007021
comment: Temporal ordering number - 467. This is commonly assayed by adding 0.5% bromophenol blue to the food and looking for wandering third instar larvae with guts lacking any blue stain (Andres and Thummel, 1994). Larvae at this stage are mainly in chromosomal puff stages 7-9 and pupate within 1-6 hours (Andres and Thummel, 1994.

Axiom
annotated source: third instar - cleared gut stage
annotated property: definition
annotated target: The substage of the wandering third instar larval stage when the larva has cleared its gut contents.
database_cross_reference: FlyBase:FBrf0076598

biological process
type: Class
subclass of: BFO_0000003
definition: The execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module.
database_cross_reference: GO:0008150
has OBO namespace: FlyBase_development_CV
id: FBdv:00007024

Axiom
annotated source: biological process
annotated property: definition
annotated target: The execution of a genetically-encoded biological module or program. It consists of all the steps required to achieve the specific biological objective of the module.
database_cross_reference: GO:0008150

immature adult stage
type: Class
subclass of: life stage
subclass of: Restriction
  on property: substage of
  some values from: day 0 of adulthood
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: P-stage
subclass of: Restriction
  on property: immediately precedes
  some values from: mature adult stage
definition: The developmental stage that lasts from eclosion of the adult from the pupal case until tanning is complete (the end of adult stage A3).
contributor: http://orcid.org/0000-0002-7073-9172
date: 2013-01-08T20:06:59Z
has OBO namespace: FlyBase_development_CV
id: FBdv:00007025
comment: Temporal ordering number - 782.

Axiom
annotated source: immature adult stage
annotated property: definition
annotated target: The developmental stage that lasts from eclosion of the adult from the pupal case until tanning is complete (the end of adult stage A3).
database_cross_reference: FBC:DOS

mature adult stage
type: Class
subclass of: life stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: adult stage A3
subclass of: Restriction
  on property: immediately preceded by
  some values from: immature adult stage
definition: Life stage from the end of adult stage A3, when tanning is complete, to death.
contributor: http://orcid.org/0000-0002-7073-9172
date: 2013-01-10T13:03:54Z
has OBO namespace: FlyBase_development_CV
id: FBdv:00007026

Axiom
annotated source: mature adult stage
annotated property: definition
annotated target: Life stage from the end of adult stage A3, when tanning is complete, to death.
database_cross_reference: FBC:DOS

day 0 of adulthood
type: Class
subclass of: adult age in days
subclass of: Restriction
  on property: substage of
  some values from: adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P15
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage P15(ii)
subclass of: Restriction
  on property: immediately preceded by
  some values from: pharate adult stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: P-stage
definition: The day of eclosion.
has OBO namespace: FlyBase_development_CV
id: FBdv:00007075
comment: Temporal ordering number - 780.

Axiom
annotated source: day 0 of adulthood
annotated property: definition
annotated target: The day of eclosion.
database_cross_reference: FBC:DOS

early extended germ band stage
type: Class
subclass of: developmental stage
subclass of: Restriction
  on property: substage of
  some values from: extended germ band stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: gastrula stage
subclass of: Restriction
  on property: immediately preceded by
  some values from: embryonic stage 8
definition: A collective term for stages 9 and 10.
has OBO namespace: FlyBase_development_CV
id: FBdv:00014201
comment: Temporal ordering number - 270.

Axiom
annotated source: early extended germ band stage
annotated property: definition
annotated target: A collective term for stages 9 and 10.
database_cross_reference: FBC:DOS

Drosophila melanogaster
type: Class
subclass of: invertebrate
IAO_0000111: Drosophila melanogaster
IAO_0000118: Sophophora melanogaster
IAO_0000118: fruit fly
IAO_0000412: ncbitaxon.owl

planned process
type: Class
equivalent class: Restriction
  on property: realizes
  some values from: Restriction
    on property: concretizes
    some values from: IAO_0000104
subclass of: BFO_0000015
IAO_0000111: planned process
IAO_0000112: Injecting mice with a vaccine in order to test its efficacy
IAO_0000114: IAO_0000122
definition: A process that realizes a plan which is the concretization of a plan specification.
IAO_0000116: 'Plan' includes a future direction sense. That can be problematic if plans are changed during their execution. There are however implicit contingencies for protocols that an agent has in his mind that can be considered part of the plan, even if the agent didn't have them in mind before. Therefore, a planned process can diverge from what the agent would have said the plan was before executing it, by adjusting to problems encountered during execution (e.g. choosing another reagent with equivalent properties, if the originally planned one has run out.)
IAO_0000116: We are only considering successfully completed planned processes. A plan may be modified, and details added during execution. For a given planned process, the associated realized plan specification is the one encompassing all changes made during execution. This means that all processes in which an agent acts towards achieving some objectives is a planned process.
IAO_0000117: Bjoern Peters
IAO_0000119: branch derived
IAO_0000232: 6/11/9: Edited at workshop. Used to include: is initiated by an agent
IAO_0000232: This class merges the previously separated objective driven process and planned process, as they the separation proved hard to maintain. (1/22/09, branch call)

specimen role
type: Class
subclass of: BFO_0000023
subclass of: Restriction
  on property: characteristic of
  some values from: Class
    intersection of: BFO_0000040
    intersection of: Restriction
      on property: is specified output of
      some values from: specimen collection process
IAO_0000111: specimen role
IAO_0000112: liver section; a portion of a culture of cells; a nemotode or other animal once no longer a subject (generally killed); portion of blood from a patient.
IAO_0000114: IAO_0000122
definition: A role borne by a material entity that is obtained during a specimen collection process and that can be realized by performing measurements or observations on the specimen.
IAO_0000116: 22Jun09. The definition includes whole organisms, and can include a human. The link between specimen role and study subject role has been removed. A specimen taken as part of a case study is not considered to be a population representative, while a specimen taken as representing a population, e.g. person taken from a cohort, blood specimen taken from an animal) would be considered a population representative and would also bear material sample role.
IAO_0000116: Note: definition is in specimen creation objective which is defined as an objective to obtain and store a material entity for potential use as an input during an investigation.
IAO_0000116: blood taken from animal: animal continues in study, whereas blood has role specimen. something taken from study subject, leaves the study and becomes the specimen.
IAO_0000116: parasite example - when parasite in people we study people, people are subjects and parasites are specimen - when parasite extracted, they become subject in the following study specimen can later be subject.
IAO_0000117: GROUP: Role Branch
IAO_0000119: OBI
IAO_0000233: https://github.com/obi-ontology/obi/issues/1013

specimen collection process
type: Class
equivalent class: Class
  intersection of: planned process
  intersection of: Restriction
    on property: achieves_planned_objective
    some values from: specimen collection objective
subclass of: planned process
subclass of: Restriction
  on property: has specified input
  some values from: BFO_0000040
subclass of: Restriction
  on property: has specified output
  some values from: specimen
IAO_0000111: specimen collection process
IAO_0000112: drawing blood from a patient for analysis, collecting a piece of a plant for depositing in a herbarium, buying meat from a butcher in order to measure its protein content in an investigation, collecting a stone from a site
IAO_0000114: IAO_0000122
definition: A planned process with the objective to obtain a material entity for potential use as an input upon which measurements or observations are performed.
IAO_0000116: Definition updated following discussion on 2024-10-07 OBI dev call.
IAO_0000116: Note: definition is in specimen creation objective which is defined as an objective to obtain and store a material entity for potential use as an input during an investigation.
IAO_0000116: Philly2013: A specimen collection can have as part a material entity acquisition, such as ordering from a bank. The distinction is that specimen collection necessarily involves the creation of a specimen role. However ordering cell lines cells from ATCC for use in an investigation is NOT a specimen collection, because the cell lines already have a specimen role.
IAO_0000116: Philly2013: The specimen_role for the specimen is created during the specimen collection process.
IAO_0000116: label changed to 'specimen collection process' on 10/27/2014, details see tracker: http://sourceforge.net/p/obi/obi-terms/716/
IAO_0000117: Bjoern Peters
IAO_0000118: specimen collection
IAO_0000232: 5/31/2012: This process is not necessarily an acquisition, as specimens may be collected from materials already in posession
IAO_0000232: 6/9/09: used at workshop

specimen collection objective
type: Class
subclass of: IAO_0000005
IAO_0000111: specimen collection objective
IAO_0000112: The objective to collect bits of excrement in the rainforest. The objective to obtain a blood sample from a patient.
IAO_0000114: IAO_0000122
definition: A objective specification that is fulfilled by obtaining a material entity for potential use as an input upon which measurements or observations are performed.
IAO_0000116: OBI recommends against subclassing this term in order to avoid further parallel hierarchies between this term and specimen collection process.
IAO_0000117: Bjoern Peters
IAO_0000119: Bjoern Peters

specimen from organism
type: Class
equivalent class: Class
  intersection of: specimen
  intersection of: Restriction
    on property: is specified output of
    some values from: Class
      intersection of: specimen collection process
      intersection of: Restriction
        on property: has specified input
        some values from: Class
subclass of: specimen
IAO_0000111: specimen from organism
IAO_0000114: IAO_0000122
definition: A specimen that derives from an anatomical part or substance arising from an organism. Examples of tissue specimen include tissue, organ, physiological system, blood, or body location (arm).
IAO_0000117: PERSON: Chris Stoeckert, Jie Zheng
IAO_0000118: tissue specimen
IAO_0000119: MO_954 organism_part

collection of specimens
type: Class
equivalent class: Class
  intersection of: BFO_0000040
  intersection of: Restriction
    on property: has member
    all values from: specimen
subclass of: BFO_0000040
IAO_0000111: collection of specimens
IAO_0000112: Blood cells collected from multiple donors over the course of a study.
IAO_0000114: IAO_0000125
definition: A material entity that has two or more specimens as its parts.
IAO_0000116: Details see tracker: https://sourceforge.net/p/obi/obi-terms/778/
IAO_0000117: Person: Chris Stoeckert, Jie Zheng
IAO_0000119: OBIB, OBI

organism
type: Class
equivalent class: Class
  union of: NCBITaxon_10239
  union of: NCBITaxon 2
  union of: NCBITaxon 2157
  union of: NCBITaxon 2759
subclass of: BFO_0000040
IAO_0000111: organism
IAO_0000112: animal
IAO_0000112: fungus
IAO_0000112: plant
IAO_0000112: virus
IAO_0000114: IAO_0000122
definition: A material entity that is an individual living system, such as animal, plant, bacteria or virus, that is capable of replicating or reproducing, growth and maintenance in the right environment. An organism may be unicellular or made up, like humans, of many billions of cells divided into specialized tissues and organs.
IAO_0000116: 10/21/09: This is a placeholder term, that should ideally be imported from the NCBI taxonomy, but the high level hierarchy there does not suit our needs (includes plasmids and 'other organisms')
IAO_0000116: 13-02-2009: OBI doesn't take position as to when an organism starts or ends being an organism - e.g. sperm, foetus. This issue is outside the scope of OBI.
IAO_0000117: GROUP: OBI Biomaterial Branch
IAO_0000119: WEB: http://en.wikipedia.org/wiki/Organism

specimen
type: Class
equivalent class: Class
  intersection of: BFO_0000040
  intersection of: Restriction
    on property: has role
    some values from: specimen role
subclass of: BFO_0000040
IAO_0000111: specimen
IAO_0000112: Biobanking of blood taken and stored in a freezer for potential future investigations stores specimen; collecting a stone from a site.
IAO_0000114: IAO_0000122
definition: A material entity that is collected for potential use as an input upon which measurements or observations are performed.
IAO_0000117: PERSON: James Malone
IAO_0000117: PERSON: Philippe Rocca-Serra
IAO_0000119: GROUP: OBI Biomaterial Branch
IAO_0000233: https://github.com/obi-ontology/obi/issues/1013

anatomical entity
type: Class
equivalent class: Restriction
  on property: is anatomical entity
  has self: true
subclass of: assay biology component
definition: Biological entity that is either an individual member of a biological species or constitutes the structural organization of an individual member of a biological species.
IAO_0000412: uberon.owl
RO_0002175: NCBITaxon_33090
RO_0002175: NCBITaxon_33208
RO_0002175: NCBITaxon 4751
database_cross_reference: AAO:0010841
database_cross_reference: AEO:0000000
database_cross_reference: BFO:0000004
database_cross_reference: BILA:0000000
database_cross_reference: BIRNLEX:6
database_cross_reference: CARO:0000000
database_cross_reference: EHDAA2:0002229
database_cross_reference: FBbt:10000000
database_cross_reference: FMA:62955
database_cross_reference: HAO:0000000
database_cross_reference: MA:0000001
database_cross_reference: NCIT:C12219
database_cross_reference: TAO:0100000
database_cross_reference: TGMA:0001822
database_cross_reference: UMLS:C1515976
database_cross_reference: WBbt:0000100
database_cross_reference: XAO:0000000
database_cross_reference: ZFA:0100000
has OBO namespace: uberon
id: UBERON:0001062
in subset: common anatomy
in subset: human subset
in subset: mouse subset
in subset: upper level

eukaryote
type: Class
subclass of: cellular organisms
definition: This includes fungi, vertebrates and invertebrates. Eukaryotic cells have a well-defined nucleus and membrane enveloped organelles namely, mitochondria, endoplasmic reticulum, golgi apparatus, and lysosomes.

invertebrate
type: Class
subclass of: metazoa
definition: These animals lack a vertebral column and many of which are used as model organisms in HTS screening including Drosophila, C.elegans, sea urchin, etc.

organism
type: Class
subclass of: assay biology component
definition: The organism related to the target / meta-target of the bioassay. It includes both bacterium and eukaryote.

cellular organisms
type: Class
subclass of: organism
definition: This includes all organisms which are made up of cells, e.g. bacteria, plants and animals.

metazoa
type: Class
subclass of: eukaryote
definition: Metazoa comprises of animals, which are multicellular eukaryotic organisms. This includes those having a vertebral column (e.g. fish, frog, snake, bird, human) and those that do not (e.g. worm, fly, star fish, etc).

assay biology component
type: Class

scRNAseq_2022_Calderon
type: NamedIndividual
type: project
type: Restriction
  on property: is specified output of
  some values from: single-nucleus RNA-Seq
filtered gene count: 2166
total gene count: 14763
node label: DataSet
definition: The continuum of Drosophila embryonic development at single-cell resolution
licence: VFBlicense CC BY 4 0
references: FBrf0254247
database_cross_reference: GEO

Axiom
annotated source: scRNAseq_2022_Calderon
annotated property: database_cross_reference
annotated target: GEO
accession: GSE190149

scRNAseq_2022_Calderon_hrs0002
type: NamedIndividual
type: biosample
type: Restriction
  on property: overlaps
  some values from: embryo
type: Restriction
  on property: existence overlaps
  some values from: cleavage stage
input of: scRNAseq_2022_Calderon_hrs0002_seq
node label: Sample
definition: Dissociated cells from 0 to 2-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0002_seq
type: NamedIndividual
type: assay
type: Restriction
  on property: has assay method
  some values from: single-cell combinatorial indexing RNA sequencing
has input: scRNAseq_2022_Calderon_hrs0002
node label: Assay
definition: Single-nucleus RNA-seq of dissociated cells from 0 to 2-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0002_seq_clustering
type: NamedIndividual
type: cell clustering analysis
has part: scRNAseq_2022_Calderon_hrs0002
has part: scRNAseq_2022_Calderon_hrs0002_seq
definition: Clustering analysis of dissociated cells from 0 to 2-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0002_seq_clustering_CNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval CNS neuron
part of: scRNAseq_2022_Calderon_hrs0002_seq_clustering
cell count: 384
filtered gene count: 191
total gene count: 6878
node label: Cluster
definition: Clustering analysis of dissociated cells from 0 to 2-hours old embryos, CNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0002_seq_clustering_primordial_germ_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: primordial germ cell
part of: scRNAseq_2022_Calderon_hrs0002_seq_clustering
cell count: 1437
filtered gene count: 140
total gene count: 6955
node label: Cluster
definition: Clustering analysis of dissociated cells from 0 to 2-hours old embryos, primordial germ cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0002_seq_clustering_stage_5_embryo_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of stage 5 embryo
part of: scRNAseq_2022_Calderon_hrs0002_seq_clustering
cell count: 3265
filtered gene count: 156
total gene count: 7081
node label: Cluster
definition: Clustering analysis of dissociated cells from 0 to 2-hours old embryos, stage 5 embryo cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0002_seq_clustering_neuroblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic neuroblast
part of: scRNAseq_2022_Calderon_hrs0002_seq_clustering
cell count: 17
filtered gene count: 130
total gene count: 1641
node label: Cluster
definition: Clustering analysis of dissociated cells from 0 to 2-hours old embryos, neuroblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0002_seq_clustering_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval muscle cell
part of: scRNAseq_2022_Calderon_hrs0002_seq_clustering
cell count: 50
filtered gene count: 330
total gene count: 4632
node label: Cluster
definition: Clustering analysis of dissociated cells from 0 to 2-hours old embryos, muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0002_seq_clustering_yolk_nuclei
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: yolk nucleus
part of: scRNAseq_2022_Calderon_hrs0002_seq_clustering
cell count: 12
filtered gene count: 222
total gene count: 1488
node label: Cluster
definition: Clustering analysis of dissociated cells from 0 to 2-hours old embryos, yolk nuclei cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0002_seq_clustering_epidermoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: epidermoblast
part of: scRNAseq_2022_Calderon_hrs0002_seq_clustering
cell count: 14
filtered gene count: 217
total gene count: 1416
node label: Cluster
definition: Clustering analysis of dissociated cells from 0 to 2-hours old embryos, epidermoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103
type: NamedIndividual
type: biosample
type: Restriction
  on property: overlaps
  some values from: embryo
type: Restriction
  on property: existence overlaps
  some values from: blastoderm stage
input of: scRNAseq_2022_Calderon_hrs0103_seq
node label: Sample
definition: Dissociated cells from 1 to 3-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103_seq
type: NamedIndividual
type: assay
type: Restriction
  on property: has assay method
  some values from: single-cell combinatorial indexing RNA sequencing
has input: scRNAseq_2022_Calderon_hrs0103
node label: Assay
definition: Single-nucleus RNA-seq of dissociated cells from 1 to 3-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103_seq_clustering
type: NamedIndividual
type: cell clustering analysis
has part: scRNAseq_2022_Calderon_hrs0103
has part: scRNAseq_2022_Calderon_hrs0103_seq
definition: Clustering analysis of dissociated cells from 1 to 3-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103_seq_clustering_CNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval CNS neuron
type: Restriction
  on property: existence overlaps
  some values from: blastoderm stage
part of: scRNAseq_2022_Calderon_hrs0103_seq_clustering
cell count: 169
filtered gene count: 132
total gene count: 5458
node label: Cluster
definition: Clustering analysis of dissociated cells from 1 to 3-hours old embryos, CNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103_seq_clustering_primordial_germ_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: primordial germ cell
type: Restriction
  on property: existence overlaps
  some values from: blastoderm stage
part of: scRNAseq_2022_Calderon_hrs0103_seq_clustering
cell count: 1034
filtered gene count: 111
total gene count: 6527
node label: Cluster
definition: Clustering analysis of dissociated cells from 1 to 3-hours old embryos, primordial germ cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103_seq_clustering_stage_5_embryo_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of stage 5 embryo
type: Restriction
  on property: existence overlaps
  some values from: blastoderm stage
part of: scRNAseq_2022_Calderon_hrs0103_seq_clustering
cell count: 5563
filtered gene count: 164
total gene count: 7773
node label: Cluster
definition: Clustering analysis of dissociated cells from 1 to 3-hours old embryos, stage 5 embryo cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103_seq_clustering_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval muscle cell
type: Restriction
  on property: existence overlaps
  some values from: blastoderm stage
part of: scRNAseq_2022_Calderon_hrs0103_seq_clustering
cell count: 201
filtered gene count: 315
total gene count: 6788
node label: Cluster
definition: Clustering analysis of dissociated cells from 1 to 3-hours old embryos, muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103_seq_clustering_ectoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of ectoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: blastoderm stage
part of: scRNAseq_2022_Calderon_hrs0103_seq_clustering
cell count: 190
filtered gene count: 193
total gene count: 4708
node label: Cluster
definition: Clustering analysis of dissociated cells from 1 to 3-hours old embryos, ectoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103_seq_clustering_yolk_nuclei
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: yolk nucleus
type: Restriction
  on property: existence overlaps
  some values from: blastoderm stage
part of: scRNAseq_2022_Calderon_hrs0103_seq_clustering
cell count: 73
filtered gene count: 280
total gene count: 3921
node label: Cluster
definition: Clustering analysis of dissociated cells from 1 to 3-hours old embryos, yolk nuclei cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103_seq_clustering_epidermal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval epidermal cell
type: Restriction
  on property: existence overlaps
  some values from: blastoderm stage
part of: scRNAseq_2022_Calderon_hrs0103_seq_clustering
cell count: 23
filtered gene count: 235
total gene count: 2579
node label: Cluster
definition: Clustering analysis of dissociated cells from 1 to 3-hours old embryos, epidermal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103_seq_clustering_peripheral_sensory_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: peripheral sensory precursor cell
type: Restriction
  on property: existence overlaps
  some values from: blastoderm stage
part of: scRNAseq_2022_Calderon_hrs0103_seq_clustering
cell count: 10
filtered gene count: 164
total gene count: 1169
node label: Cluster
definition: Clustering analysis of dissociated cells from 1 to 3-hours old embryos, peripheral sensory precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103_seq_clustering_tracheocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval tracheocyte
type: Restriction
  on property: existence overlaps
  some values from: blastoderm stage
part of: scRNAseq_2022_Calderon_hrs0103_seq_clustering
cell count: 10
filtered gene count: 216
total gene count: 1685
node label: Cluster
definition: Clustering analysis of dissociated cells from 1 to 3-hours old embryos, tracheocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0103_seq_clustering_somatic_cell_of_endoderm_anlages
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of endoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: blastoderm stage
part of: scRNAseq_2022_Calderon_hrs0103_seq_clustering
cell count: 12
filtered gene count: 203
total gene count: 1126
node label: Cluster
definition: Clustering analysis of dissociated cells from 1 to 3-hours old embryos, somatic cell of endoderm anlages cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0204
type: NamedIndividual
type: biosample
type: Restriction
  on property: overlaps
  some values from: embryo
type: Restriction
  on property: existence overlaps
  some values from: gastrula stage
input of: scRNAseq_2022_Calderon_hrs0204_seq
node label: Sample
definition: Dissociated cells from 2 to 4-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0204_seq
type: NamedIndividual
type: assay
type: Restriction
  on property: has assay method
  some values from: single-cell combinatorial indexing RNA sequencing
has input: scRNAseq_2022_Calderon_hrs0204
node label: Assay
definition: Single-nucleus RNA-seq of dissociated cells from 2 to 4-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0204_seq_clustering
type: NamedIndividual
type: cell clustering analysis
has part: scRNAseq_2022_Calderon_hrs0204
has part: scRNAseq_2022_Calderon_hrs0204_seq
definition: Clustering analysis of dissociated cells from 2 to 4-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0204_seq_clustering_mesoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of mesoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: gastrula stage
part of: scRNAseq_2022_Calderon_hrs0204_seq_clustering
cell count: 19
filtered gene count: 328
total gene count: 1779
node label: Cluster
definition: Clustering analysis of dissociated cells from 2 to 4-hours old embryos, mesoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0204_seq_clustering_stage_5_embryo_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of stage 5 embryo
type: Restriction
  on property: existence overlaps
  some values from: gastrula stage
part of: scRNAseq_2022_Calderon_hrs0204_seq_clustering
cell count: 163
filtered gene count: 440
total gene count: 5205
node label: Cluster
definition: Clustering analysis of dissociated cells from 2 to 4-hours old embryos, stage 5 embryo cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0204_seq_clustering_primordial_germ_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: primordial germ cell
type: Restriction
  on property: existence overlaps
  some values from: gastrula stage
part of: scRNAseq_2022_Calderon_hrs0204_seq_clustering
cell count: 27
filtered gene count: 569
total gene count: 3866
node label: Cluster
definition: Clustering analysis of dissociated cells from 2 to 4-hours old embryos, primordial germ cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0204_seq_clustering_ectoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of ectoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: gastrula stage
part of: scRNAseq_2022_Calderon_hrs0204_seq_clustering
cell count: 651
filtered gene count: 346
total gene count: 6345
node label: Cluster
definition: Clustering analysis of dissociated cells from 2 to 4-hours old embryos, ectoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0204_seq_clustering_somatic_cell_of_endoderm_anlages
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of endoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: gastrula stage
part of: scRNAseq_2022_Calderon_hrs0204_seq_clustering
cell count: 20
filtered gene count: 225
total gene count: 1785
node label: Cluster
definition: Clustering analysis of dissociated cells from 2 to 4-hours old embryos, somatic cell of endoderm anlages cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0204_seq_clustering_yolk_nuclei
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: yolk nucleus
type: Restriction
  on property: existence overlaps
  some values from: gastrula stage
part of: scRNAseq_2022_Calderon_hrs0204_seq_clustering
cell count: 371
filtered gene count: 491
total gene count: 6339
node label: Cluster
definition: Clustering analysis of dissociated cells from 2 to 4-hours old embryos, yolk nuclei cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0204_seq_clustering_peripheral_sensory_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: peripheral sensory precursor cell
type: Restriction
  on property: existence overlaps
  some values from: gastrula stage
part of: scRNAseq_2022_Calderon_hrs0204_seq_clustering
cell count: 22
filtered gene count: 275
total gene count: 1966
node label: Cluster
definition: Clustering analysis of dissociated cells from 2 to 4-hours old embryos, peripheral sensory precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307
type: NamedIndividual
type: biosample
type: Restriction
  on property: overlaps
  some values from: embryo
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
input of: scRNAseq_2022_Calderon_hrs0307_seq
node label: Sample
definition: Dissociated cells from 3 to 7-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq
type: NamedIndividual
type: assay
type: Restriction
  on property: has assay method
  some values from: single-cell combinatorial indexing RNA sequencing
has input: scRNAseq_2022_Calderon_hrs0307
node label: Assay
definition: Single-nucleus RNA-seq of dissociated cells from 3 to 7-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering
type: NamedIndividual
type: cell clustering analysis
has part: scRNAseq_2022_Calderon_hrs0307
has part: scRNAseq_2022_Calderon_hrs0307_seq
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_trunk_mesoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of trunk mesoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 624
filtered gene count: 214
total gene count: 7537
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, trunk mesoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_neuroblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic neuroblast
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 1420
filtered gene count: 159
total gene count: 7972
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, neuroblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_peripheral_sensory_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: peripheral sensory precursor cell
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 2226
filtered gene count: 335
total gene count: 8790
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, peripheral sensory precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_myoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic myoblast
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 445
filtered gene count: 155
total gene count: 6077
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, myoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_mesoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of mesoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 2361
filtered gene count: 299
total gene count: 8663
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, mesoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_ectoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of ectoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 11133
filtered gene count: 265
total gene count: 10629
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, ectoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_epidermoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: epidermoblast
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 1603
filtered gene count: 172
total gene count: 7698
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, epidermoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_somatic_cell_of_endoderm_anlages
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of endoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 1758
filtered gene count: 288
total gene count: 8430
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, somatic cell of endoderm anlages cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_midline_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of midline primordium
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 31
filtered gene count: 227
total gene count: 2136
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, midline primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_yolk_nuclei
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: yolk nucleus
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 2626
filtered gene count: 300
total gene count: 9472
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, yolk nuclei cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_tracheal_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: tracheal precursor cell
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 1183
filtered gene count: 297
total gene count: 9456
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, tracheal precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_amnioserosa_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of amnioserosa
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 1016
filtered gene count: 305
total gene count: 7793
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, amnioserosa cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_midgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval midgut primordium
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 289
filtered gene count: 187
total gene count: 5487
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, midgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval muscle cell
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 76
filtered gene count: 318
total gene count: 4930
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_presumptive_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of presumptive embryonic salivary gland
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 97
filtered gene count: 186
total gene count: 3724
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, presumptive salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_primordial_germ_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: primordial germ cell
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 1824
filtered gene count: 279
total gene count: 8180
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, primordial germ cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_stage_5_embryo_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of stage 5 embryo
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 236
filtered gene count: 252
total gene count: 5790
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, stage 5 embryo cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_epidermal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval epidermal cell
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 129
filtered gene count: 189
total gene count: 5082
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, epidermal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_tracheocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval tracheocyte
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 40
filtered gene count: 176
total gene count: 3619
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, tracheocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_PNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval PNS neuron
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 47
filtered gene count: 188
total gene count: 2215
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, PNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_CNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval CNS neuron
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 43
filtered gene count: 127
total gene count: 3239
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, CNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_specialized_Malpighian_tubule_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic specialized Malpighian tubule cell
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 45
filtered gene count: 390
total gene count: 4261
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, specialized Malpighian tubule cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_proplasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: proplasmatocyte
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 13
filtered gene count: 293
total gene count: 1427
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, proplasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_midgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval midgut cell
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 23
filtered gene count: 194
total gene count: 2327
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, midgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_hindgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval hindgut
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 21
filtered gene count: 289
total gene count: 2575
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, hindgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval salivary gland
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 34
filtered gene count: 325
total gene count: 3522
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_somatic_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic somatic muscle cell
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 35
filtered gene count: 136
total gene count: 2549
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, somatic muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_inclusive_hindgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of inclusive hindgut primordium
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 16
filtered gene count: 179
total gene count: 1433
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, inclusive hindgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0307_seq_clustering_precursor_fat_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: precursor fat cell
type: Restriction
  on property: existence overlaps
  some values from: early extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0307_seq_clustering
cell count: 15
filtered gene count: 128
total gene count: 1317
node label: Cluster
definition: Clustering analysis of dissociated cells from 3 to 7-hours old embryos, precursor fat cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408
type: NamedIndividual
type: biosample
type: Restriction
  on property: overlaps
  some values from: embryo
type: Restriction
  on property: existence overlaps
  some values from: extended germ band stage
input of: scRNAseq_2022_Calderon_hrs0408_seq
node label: Sample
definition: Dissociated cells from 4 to 8-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq
type: NamedIndividual
type: assay
type: Restriction
  on property: has assay method
  some values from: single-cell combinatorial indexing RNA sequencing
has input: scRNAseq_2022_Calderon_hrs0408
node label: Assay
definition: Single-nucleus RNA-seq of dissociated cells from 4 to 8-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering
type: NamedIndividual
type: cell clustering analysis
has part: scRNAseq_2022_Calderon_hrs0408
has part: scRNAseq_2022_Calderon_hrs0408_seq
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_neuroblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic neuroblast
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 4336
filtered gene count: 206
total gene count: 9403
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, neuroblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_trunk_mesoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of trunk mesoderm anlage
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 538
filtered gene count: 173
total gene count: 6927
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, trunk mesoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_epidermal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval epidermal cell
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 56
filtered gene count: 176
total gene count: 3786
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, epidermal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_epidermoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: epidermoblast
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 1599
filtered gene count: 164
total gene count: 7732
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, epidermoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_proplasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: proplasmatocyte
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 29
filtered gene count: 183
total gene count: 2048
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, proplasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval muscle cell
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 75
filtered gene count: 302
total gene count: 4541
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_myoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic myoblast
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 417
filtered gene count: 149
total gene count: 5904
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, myoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_peripheral_sensory_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: peripheral sensory precursor cell
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 760
filtered gene count: 216
total gene count: 7098
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, peripheral sensory precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_ectoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of ectoderm anlage
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 4627
filtered gene count: 202
total gene count: 9375
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, ectoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_midgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval midgut primordium
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 297
filtered gene count: 179
total gene count: 5490
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, midgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_yolk_nuclei
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: yolk nucleus
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 1691
filtered gene count: 236
total gene count: 8577
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, yolk nuclei cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_midline_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of midline primordium
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 40
filtered gene count: 206
total gene count: 2720
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, midline primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_somatic_cell_of_endoderm_anlages
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of endoderm anlage
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 598
filtered gene count: 204
total gene count: 6708
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, somatic cell of endoderm anlages cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_mesoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of mesoderm anlage
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 765
filtered gene count: 194
total gene count: 6989
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, mesoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_PNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval PNS neuron
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 48
filtered gene count: 170
total gene count: 2410
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, PNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_CNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval CNS neuron
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 23
filtered gene count: 151
total gene count: 2114
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, CNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_primordial_germ_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: primordial germ cell
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 1477
filtered gene count: 294
total gene count: 8002
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, primordial germ cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_amnioserosa_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of amnioserosa
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 753
filtered gene count: 209
total gene count: 7082
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, amnioserosa cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_stage_5_embryo_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of stage 5 embryo
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 86
filtered gene count: 207
total gene count: 4683
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, stage 5 embryo cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_tracheocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval tracheocyte
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 26
filtered gene count: 227
total gene count: 3263
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, tracheocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_presumptive_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of presumptive embryonic salivary gland
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 69
filtered gene count: 183
total gene count: 3058
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, presumptive salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_inclusive_hindgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of inclusive hindgut primordium
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 24
filtered gene count: 198
total gene count: 1784
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, inclusive hindgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_tracheal_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: tracheal precursor cell
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 496
filtered gene count: 279
total gene count: 8494
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, tracheal precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_midgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval midgut cell
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 19
filtered gene count: 361
total gene count: 2940
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, midgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0408_seq_clustering_specialized_Malpighian_tubule_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic specialized Malpighian tubule cell
part of: scRNAseq_2022_Calderon_hrs0408_seq_clustering
cell count: 30
filtered gene count: 408
total gene count: 3561
node label: Cluster
definition: Clustering analysis of dissociated cells from 4 to 8-hours old embryos, specialized Malpighian tubule cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610
type: NamedIndividual
type: biosample
type: Restriction
  on property: overlaps
  some values from: embryo
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
input of: scRNAseq_2022_Calderon_hrs0610_seq
node label: Sample
definition: Dissociated cells from 6 to 10-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq
type: NamedIndividual
type: assay
type: Restriction
  on property: has assay method
  some values from: single-cell combinatorial indexing RNA sequencing
has input: scRNAseq_2022_Calderon_hrs0610
node label: Assay
definition: Single-nucleus RNA-seq of dissociated cells from 6 to 10-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering
type: NamedIndividual
type: cell clustering analysis
has part: scRNAseq_2022_Calderon_hrs0610
has part: scRNAseq_2022_Calderon_hrs0610_seq
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_CNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval CNS neuron
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 384
filtered gene count: 153
total gene count: 6068
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, CNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_proplasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: proplasmatocyte
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 569
filtered gene count: 210
total gene count: 6607
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, proplasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_midline_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of midline primordium
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 416
filtered gene count: 212
total gene count: 5967
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, midline primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_trunk_mesoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of trunk mesoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 942
filtered gene count: 177
total gene count: 7588
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, trunk mesoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_myoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic myoblast
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 3418
filtered gene count: 189
total gene count: 9039
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, myoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_midgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval midgut primordium
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 1418
filtered gene count: 194
total gene count: 7765
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, midgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_epidermoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: epidermoblast
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 6708
filtered gene count: 170
total gene count: 9751
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, epidermoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_neuroblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic neuroblast
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 7407
filtered gene count: 186
total gene count: 10006
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, neuroblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_PNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval PNS neuron
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 1952
filtered gene count: 207
total gene count: 8179
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, PNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_plasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval plasmatocyte
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 36
filtered gene count: 153
total gene count: 2154
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, plasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_glial_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval glial cell
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 17
filtered gene count: 176
total gene count: 1302
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, glial cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_procrystal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: procrystal cell
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 714
filtered gene count: 647
total gene count: 8336
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, procrystal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_primordial_germ_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: primordial germ cell
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 4234
filtered gene count: 252
total gene count: 9221
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, primordial germ cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_inclusive_hindgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of inclusive hindgut primordium
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 904
filtered gene count: 194
total gene count: 7223
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, inclusive hindgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_hindgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval hindgut
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 36
filtered gene count: 156
total gene count: 2079
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, hindgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_presumptive_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of presumptive embryonic salivary gland
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 302
filtered gene count: 185
total gene count: 5531
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, presumptive salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval muscle cell
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 72
filtered gene count: 310
total gene count: 4634
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_amnioserosa_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of amnioserosa
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 1551
filtered gene count: 214
total gene count: 7980
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, amnioserosa cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_tracheal_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: tracheal precursor cell
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 636
filtered gene count: 195
total gene count: 7410
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, tracheal precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_yolk_nuclei
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: yolk nucleus
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 2541
filtered gene count: 245
total gene count: 8745
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, yolk nuclei cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_salivary_gland_body_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of salivary gland body primordium
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 414
filtered gene count: 215
total gene count: 6048
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, salivary gland body primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_epidermal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval epidermal cell
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 242
filtered gene count: 138
total gene count: 5065
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, epidermal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_ectoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of ectoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 271
filtered gene count: 171
total gene count: 4672
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, ectoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_midgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval midgut cell
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 75
filtered gene count: 171
total gene count: 4031
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, midgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_somatic_cell_of_endoderm_anlages
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of endoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 59
filtered gene count: 207
total gene count: 2860
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, somatic cell of endoderm anlages cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_stage_5_embryo_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of stage 5 embryo
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 73
filtered gene count: 246
total gene count: 4518
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, stage 5 embryo cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_somatic_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic somatic muscle cell
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 64
filtered gene count: 139
total gene count: 3009
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, somatic muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_peripheral_sensory_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: peripheral sensory precursor cell
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 61
filtered gene count: 199
total gene count: 2734
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, peripheral sensory precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_mesoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of mesoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 44
filtered gene count: 200
total gene count: 2322
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, mesoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_tracheocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval tracheocyte
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 65
filtered gene count: 158
total gene count: 3455
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, tracheocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_specialized_Malpighian_tubule_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic specialized Malpighian tubule cell
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 10
filtered gene count: 150
total gene count: 1299
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, specialized Malpighian tubule cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0610_seq_clustering_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval salivary gland
type: Restriction
  on property: existence overlaps
  some values from: late extended germ band stage
part of: scRNAseq_2022_Calderon_hrs0610_seq_clustering
cell count: 61
filtered gene count: 149
total gene count: 3160
node label: Cluster
definition: Clustering analysis of dissociated cells from 6 to 10-hours old embryos, salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812
type: NamedIndividual
type: biosample
type: Restriction
  on property: overlaps
  some values from: embryo
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
input of: scRNAseq_2022_Calderon_hrs0812_seq
node label: Sample
definition: Dissociated cells from 8 to 12-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq
type: NamedIndividual
type: assay
type: Restriction
  on property: has assay method
  some values from: single-cell combinatorial indexing RNA sequencing
has input: scRNAseq_2022_Calderon_hrs0812
node label: Assay
definition: Single-nucleus RNA-seq of dissociated cells from 8 to 12-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering
type: NamedIndividual
type: cell clustering analysis
has part: scRNAseq_2022_Calderon_hrs0812
has part: scRNAseq_2022_Calderon_hrs0812_seq
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_myoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic myoblast
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 4724
filtered gene count: 202
total gene count: 9469
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, myoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_CNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval CNS neuron
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 5858
filtered gene count: 253
total gene count: 10179
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, CNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_midline_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of midline primordium
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 745
filtered gene count: 255
total gene count: 7058
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, midline primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_plasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval plasmatocyte
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 774
filtered gene count: 181
total gene count: 6959
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, plasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_neuroblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic neuroblast
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 8432
filtered gene count: 197
total gene count: 10137
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, neuroblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_proplasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: proplasmatocyte
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 1256
filtered gene count: 230
total gene count: 7786
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, proplasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_epidermoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: epidermoblast
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 6946
filtered gene count: 177
total gene count: 9861
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, epidermoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_visceral_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval visceral muscle cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 46
filtered gene count: 151
total gene count: 2443
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, visceral muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_PNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval PNS neuron
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 2932
filtered gene count: 231
total gene count: 8781
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, PNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_crystal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval crystal cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 163
filtered gene count: 172
total gene count: 4791
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, crystal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_procrystal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: procrystal cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 1163
filtered gene count: 667
total gene count: 9081
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, procrystal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval salivary gland
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 714
filtered gene count: 202
total gene count: 6919
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_glial_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval glial cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 300
filtered gene count: 215
total gene count: 5397
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, glial cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_tracheal_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: tracheal precursor cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 1159
filtered gene count: 210
total gene count: 7787
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, tracheal precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_epidermal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval epidermal cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 3500
filtered gene count: 164
total gene count: 8914
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, epidermal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval muscle cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 360
filtered gene count: 225
total gene count: 6318
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_primordial_germ_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: primordial germ cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 3741
filtered gene count: 280
total gene count: 9226
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, primordial germ cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_trunk_mesoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of trunk mesoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 115
filtered gene count: 147
total gene count: 3946
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, trunk mesoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_tracheocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval tracheocyte
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 726
filtered gene count: 197
total gene count: 6857
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, tracheocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_hindgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval hindgut
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 432
filtered gene count: 189
total gene count: 5980
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, hindgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_midgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval midgut cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 659
filtered gene count: 188
total gene count: 6747
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, midgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_somatic_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic somatic muscle cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 881
filtered gene count: 179
total gene count: 7054
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, somatic muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_midgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval midgut primordium
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 1282
filtered gene count: 209
total gene count: 7625
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, midgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_inclusive_hindgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of inclusive hindgut primordium
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 1449
filtered gene count: 218
total gene count: 7890
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, inclusive hindgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_amnioserosa_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of amnioserosa
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 2897
filtered gene count: 241
total gene count: 8883
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, amnioserosa cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_salivary_gland_body_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of salivary gland body primordium
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 720
filtered gene count: 309
total gene count: 7284
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, salivary gland body primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_precursor_fat_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: precursor fat cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 45
filtered gene count: 183
total gene count: 3014
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, precursor fat cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_yolk_nuclei
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: yolk nucleus
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 4526
filtered gene count: 272
total gene count: 9499
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, yolk nuclei cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_stage_5_embryo_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of stage 5 embryo
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 56
filtered gene count: 227
total gene count: 4305
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, stage 5 embryo cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_presumptive_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of presumptive embryonic salivary gland
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 29
filtered gene count: 191
total gene count: 1922
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, presumptive salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_ectoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of ectoderm anlage
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 33
filtered gene count: 203
total gene count: 1925
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, ectoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_proventriculus_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval proventriculus
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 37
filtered gene count: 217
total gene count: 2681
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, proventriculus cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs0812_seq_clustering_specialized_Malpighian_tubule_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic specialized Malpighian tubule cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs0812_seq_clustering
cell count: 23
filtered gene count: 231
total gene count: 2394
node label: Cluster
definition: Clustering analysis of dissociated cells from 8 to 12-hours old embryos, specialized Malpighian tubule cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014
type: NamedIndividual
type: biosample
type: Restriction
  on property: overlaps
  some values from: embryo
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
input of: scRNAseq_2022_Calderon_hrs1014_seq
node label: Sample
definition: Dissociated cells from 10 to 14-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq
type: NamedIndividual
type: assay
type: Restriction
  on property: has assay method
  some values from: single-cell combinatorial indexing RNA sequencing
has input: scRNAseq_2022_Calderon_hrs1014
node label: Assay
definition: Single-nucleus RNA-seq of dissociated cells from 10 to 14-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering
type: NamedIndividual
type: cell clustering analysis
has part: scRNAseq_2022_Calderon_hrs1014
has part: scRNAseq_2022_Calderon_hrs1014_seq
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_epidermal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval epidermal cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 6087
filtered gene count: 150
total gene count: 10009
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, epidermal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_somatic_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic somatic muscle cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 2899
filtered gene count: 170
total gene count: 9075
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, somatic muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_CNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval CNS neuron
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 3810
filtered gene count: 134
total gene count: 9488
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, CNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_glial_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval glial cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 343
filtered gene count: 182
total gene count: 5889
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, glial cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_hindgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval hindgut
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 1094
filtered gene count: 176
total gene count: 7831
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, hindgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval muscle cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 1318
filtered gene count: 564
total gene count: 9150
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_plasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval plasmatocyte
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 759
filtered gene count: 169
total gene count: 7244
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, plasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_proplasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: proplasmatocyte
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 11
filtered gene count: 199
total gene count: 1237
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, proplasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_midgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval midgut cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 2441
filtered gene count: 174
total gene count: 8926
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, midgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_procrystal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: procrystal cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 12
filtered gene count: 738
total gene count: 2746
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, procrystal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_primordial_germ_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: primordial germ cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 1303
filtered gene count: 270
total gene count: 8067
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, primordial germ cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_visceral_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval visceral muscle cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 372
filtered gene count: 160
total gene count: 6017
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, visceral muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_proventriculus_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval proventriculus
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 754
filtered gene count: 170
total gene count: 7295
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, proventriculus cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_tracheocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval tracheocyte
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 1819
filtered gene count: 169
total gene count: 8513
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, tracheocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_precursor_fat_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: precursor fat cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 1273
filtered gene count: 162
total gene count: 8051
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, precursor fat cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_specialized_Malpighian_tubule_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic specialized Malpighian tubule cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 355
filtered gene count: 156
total gene count: 6185
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, specialized Malpighian tubule cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_amnioserosa_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of amnioserosa
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 794
filtered gene count: 185
total gene count: 6964
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, amnioserosa cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_myoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic myoblast
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 40
filtered gene count: 137
total gene count: 2300
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, myoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_PNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval PNS neuron
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 16
filtered gene count: 208
total gene count: 1574
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, PNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_midline_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of midline primordium
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 13
filtered gene count: 223
total gene count: 1132
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, midline primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_crystal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval crystal cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 33
filtered gene count: 207
total gene count: 2851
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, crystal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval salivary gland
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 874
filtered gene count: 153
total gene count: 7273
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_stage_5_embryo_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of stage 5 embryo
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 16
filtered gene count: 233
total gene count: 2406
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, stage 5 embryo cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_tracheal_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: tracheal precursor cell
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 22
filtered gene count: 199
total gene count: 2128
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, tracheal precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_epidermoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: epidermoblast
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 63
filtered gene count: 171
total gene count: 3027
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, epidermoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_yolk_nuclei
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: yolk nucleus
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 3010
filtered gene count: 184
total gene count: 8758
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, yolk nuclei cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_midgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval midgut primordium
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 21
filtered gene count: 175
total gene count: 1664
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, midgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_inclusive_hindgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of inclusive hindgut primordium
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 15
filtered gene count: 158
total gene count: 1399
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, inclusive hindgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1014_seq_clustering_neuroblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic neuroblast
type: Restriction
  on property: existence overlaps
  some values from: dorsal closure stage
part of: scRNAseq_2022_Calderon_hrs1014_seq_clustering
cell count: 86
filtered gene count: 190
total gene count: 3758
node label: Cluster
definition: Clustering analysis of dissociated cells from 10 to 14-hours old embryos, neuroblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216
type: NamedIndividual
type: biosample
type: Restriction
  on property: overlaps
  some values from: embryo
type: Restriction
  on property: existence overlaps
  some values from: embryonic stage 16
input of: scRNAseq_2022_Calderon_hrs1216_seq
node label: Sample
definition: Dissociated cells from 12 to 16-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq
type: NamedIndividual
type: assay
type: Restriction
  on property: has assay method
  some values from: single-cell combinatorial indexing RNA sequencing
has input: scRNAseq_2022_Calderon_hrs1216
node label: Assay
definition: Single-nucleus RNA-seq of dissociated cells from 12 to 16-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering
type: NamedIndividual
type: cell clustering analysis
has part: scRNAseq_2022_Calderon_hrs1216
has part: scRNAseq_2022_Calderon_hrs1216_seq
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_CNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval CNS neuron
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 2729
filtered gene count: 151
total gene count: 9264
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, CNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_glial_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval glial cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 174
filtered gene count: 178
total gene count: 4735
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, glial cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_epidermal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval epidermal cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 6637
filtered gene count: 162
total gene count: 10256
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, epidermal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_visceral_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval visceral muscle cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 271
filtered gene count: 164
total gene count: 5544
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, visceral muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_specialized_Malpighian_tubule_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic specialized Malpighian tubule cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 294
filtered gene count: 167
total gene count: 6126
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, specialized Malpighian tubule cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_somatic_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic somatic muscle cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 3826
filtered gene count: 160
total gene count: 9435
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, somatic muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_plasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval plasmatocyte
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 1403
filtered gene count: 162
total gene count: 7977
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, plasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_midgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval midgut cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 2576
filtered gene count: 176
total gene count: 9064
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, midgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_primordial_germ_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: primordial germ cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 985
filtered gene count: 229
total gene count: 7819
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, primordial germ cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_precursor_fat_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: precursor fat cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 1786
filtered gene count: 157
total gene count: 8632
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, precursor fat cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_hindgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval hindgut
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 900
filtered gene count: 170
total gene count: 7618
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, hindgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_tracheocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval tracheocyte
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 2407
filtered gene count: 176
total gene count: 9124
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, tracheocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_myoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic myoblast
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 12
filtered gene count: 232
total gene count: 1427
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, myoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval muscle cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 1007
filtered gene count: 374
total gene count: 8830
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_proventriculus_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval proventriculus
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 980
filtered gene count: 172
total gene count: 7917
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, proventriculus cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_yolk_nuclei
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: yolk nucleus
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 2167
filtered gene count: 132
total gene count: 7956
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, yolk nuclei cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_amnioserosa_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of amnioserosa
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 543
filtered gene count: 211
total gene count: 6034
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, amnioserosa cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_epidermoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: epidermoblast
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 11
filtered gene count: 190
total gene count: 1291
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, epidermoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_stage_5_embryo_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of stage 5 embryo
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 16
filtered gene count: 163
total gene count: 2161
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, stage 5 embryo cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval salivary gland
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 922
filtered gene count: 154
total gene count: 7448
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_neuroblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic neuroblast
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 21
filtered gene count: 164
total gene count: 1908
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, neuroblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1216_seq_clustering_crystal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval crystal cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1216_seq_clustering
cell count: 10
filtered gene count: 244
total gene count: 2090
node label: Cluster
definition: Clustering analysis of dissociated cells from 12 to 16-hours old embryos, crystal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418
type: NamedIndividual
type: biosample
type: Restriction
  on property: overlaps
  some values from: embryo
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
input of: scRNAseq_2022_Calderon_hrs1418_seq
node label: Sample
definition: Dissociated cells from 14 to 18-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq
type: NamedIndividual
type: assay
type: Restriction
  on property: has assay method
  some values from: single-cell combinatorial indexing RNA sequencing
has input: scRNAseq_2022_Calderon_hrs1418
node label: Assay
definition: Single-nucleus RNA-seq of dissociated cells from 14 to 18-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering
type: NamedIndividual
type: cell clustering analysis
has part: scRNAseq_2022_Calderon_hrs1418
has part: scRNAseq_2022_Calderon_hrs1418_seq
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_epidermal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval epidermal cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 5532
filtered gene count: 159
total gene count: 10209
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, epidermal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_plasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval plasmatocyte
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 1001
filtered gene count: 155
total gene count: 7515
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, plasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_CNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval CNS neuron
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 5076
filtered gene count: 234
total gene count: 10413
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, CNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_hindgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval hindgut
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 136
filtered gene count: 170
total gene count: 4606
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, hindgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_midgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval midgut cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 1526
filtered gene count: 170
total gene count: 8754
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, midgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval muscle cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 491
filtered gene count: 251
total gene count: 7665
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_glial_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval glial cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 70
filtered gene count: 176
total gene count: 3093
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, glial cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_yolk_nuclei
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: yolk nucleus
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 2618
filtered gene count: 170
total gene count: 8705
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, yolk nuclei cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_visceral_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval visceral muscle cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 77
filtered gene count: 168
total gene count: 3364
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, visceral muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_primordial_germ_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: primordial germ cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 977
filtered gene count: 269
total gene count: 8120
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, primordial germ cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_proventriculus_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval proventriculus
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 387
filtered gene count: 176
total gene count: 6757
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, proventriculus cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_precursor_fat_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: precursor fat cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 728
filtered gene count: 161
total gene count: 7451
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, precursor fat cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_somatic_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic somatic muscle cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 2091
filtered gene count: 176
total gene count: 8794
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, somatic muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_amnioserosa_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of amnioserosa
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 694
filtered gene count: 175
total gene count: 6704
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, amnioserosa cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_tracheocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval tracheocyte
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 917
filtered gene count: 181
total gene count: 8036
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, tracheocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval salivary gland
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 607
filtered gene count: 146
total gene count: 6776
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_myoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic myoblast
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 64
filtered gene count: 187
total gene count: 3054
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, myoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_specialized_Malpighian_tubule_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic specialized Malpighian tubule cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 95
filtered gene count: 208
total gene count: 4571
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, specialized Malpighian tubule cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_crystal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval crystal cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 18
filtered gene count: 255
total gene count: 2438
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, crystal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_PNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval PNS neuron
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 26
filtered gene count: 165
total gene count: 1691
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, PNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_neuroblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic neuroblast
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 121
filtered gene count: 185
total gene count: 4704
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, neuroblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_epidermoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: epidermoblast
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 104
filtered gene count: 172
total gene count: 3907
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, epidermoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_inclusive_hindgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of inclusive hindgut primordium
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 16
filtered gene count: 155
total gene count: 1394
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, inclusive hindgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_midgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval midgut primordium
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 11
filtered gene count: 168
total gene count: 1085
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, midgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1418_seq_clustering_tracheal_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: tracheal precursor cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1418_seq_clustering
cell count: 12
filtered gene count: 228
total gene count: 1639
node label: Cluster
definition: Clustering analysis of dissociated cells from 14 to 18-hours old embryos, tracheal precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620
type: NamedIndividual
type: biosample
type: Restriction
  on property: overlaps
  some values from: embryo
type: Restriction
  on property: existence overlaps
  some values from: embryonic stage 17
input of: scRNAseq_2022_Calderon_hrs1620_seq
node label: Sample
definition: Dissociated cells from 16 to 20-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq
type: NamedIndividual
type: assay
type: Restriction
  on property: has assay method
  some values from: single-cell combinatorial indexing RNA sequencing
has input: scRNAseq_2022_Calderon_hrs1620
node label: Assay
definition: Single-nucleus RNA-seq of dissociated cells from 16 to 20-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering
type: NamedIndividual
type: cell clustering analysis
has part: scRNAseq_2022_Calderon_hrs1620
has part: scRNAseq_2022_Calderon_hrs1620_seq
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_CNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval CNS neuron
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 11577
filtered gene count: 594
total gene count: 11909
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, CNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_midgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval midgut cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 4523
filtered gene count: 396
total gene count: 10718
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, midgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_glial_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval glial cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 33
filtered gene count: 156
total gene count: 2143
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, glial cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_epidermal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval epidermal cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 17264
filtered gene count: 183
total gene count: 11490
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, epidermal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_plasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval plasmatocyte
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 1631
filtered gene count: 146
total gene count: 8448
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, plasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval salivary gland
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 283
filtered gene count: 145
total gene count: 5610
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval muscle cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 2581
filtered gene count: 286
total gene count: 9482
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_primordial_germ_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: primordial germ cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 371
filtered gene count: 236
total gene count: 7087
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, primordial germ cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_proventriculus_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval proventriculus
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 333
filtered gene count: 164
total gene count: 6536
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, proventriculus cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_yolk_nuclei
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: yolk nucleus
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 1981
filtered gene count: 146
total gene count: 8395
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, yolk nuclei cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_visceral_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval visceral muscle cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 29
filtered gene count: 205
total gene count: 1951
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, visceral muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_somatic_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic somatic muscle cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 5043
filtered gene count: 189
total gene count: 10095
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, somatic muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_tracheocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval tracheocyte
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 2165
filtered gene count: 197
total gene count: 9189
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, tracheocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_amnioserosa_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of amnioserosa
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 205
filtered gene count: 187
total gene count: 4331
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, amnioserosa cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_precursor_fat_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: precursor fat cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 1712
filtered gene count: 153
total gene count: 8765
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, precursor fat cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_specialized_Malpighian_tubule_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic specialized Malpighian tubule cell
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 292
filtered gene count: 247
total gene count: 6807
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, specialized Malpighian tubule cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_hindgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval hindgut
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 86
filtered gene count: 162
total gene count: 3652
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, hindgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_neuroblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic neuroblast
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 25
filtered gene count: 130
total gene count: 2280
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, neuroblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_hrs1620_seq_clustering_epidermoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: epidermoblast
type: Restriction
  on property: existence overlaps
  some values from: late embryonic stage
part of: scRNAseq_2022_Calderon_hrs1620_seq_clustering
cell count: 11
filtered gene count: 144
total gene count: 1131
node label: Cluster
definition: Clustering analysis of dissociated cells from 16 to 20-hours old embryos, epidermoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering
type: NamedIndividual
type: cell clustering analysis
has part: scRNAseq_2022_Calderon_hrs0002
has part: scRNAseq_2022_Calderon_hrs0002_seq
has part: scRNAseq_2022_Calderon_hrs0103
has part: scRNAseq_2022_Calderon_hrs0103_seq
has part: scRNAseq_2022_Calderon_hrs0204
has part: scRNAseq_2022_Calderon_hrs0204_seq
has part: scRNAseq_2022_Calderon_hrs0307
has part: scRNAseq_2022_Calderon_hrs0307_seq
has part: scRNAseq_2022_Calderon_hrs0408
has part: scRNAseq_2022_Calderon_hrs0408_seq
has part: scRNAseq_2022_Calderon_hrs0610
has part: scRNAseq_2022_Calderon_hrs0610_seq
has part: scRNAseq_2022_Calderon_hrs0812
has part: scRNAseq_2022_Calderon_hrs0812_seq
has part: scRNAseq_2022_Calderon_hrs1014
has part: scRNAseq_2022_Calderon_hrs1014_seq
has part: scRNAseq_2022_Calderon_hrs1216
has part: scRNAseq_2022_Calderon_hrs1216_seq
has part: scRNAseq_2022_Calderon_hrs1418
has part: scRNAseq_2022_Calderon_hrs1418_seq
has part: scRNAseq_2022_Calderon_hrs1620
has part: scRNAseq_2022_Calderon_hrs1620_seq
definition: Consolidated clustering analysis of embryonic cells from all samples
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_CNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval CNS neuron
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 30055
filtered gene count: 322
total gene count: 12785
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, CNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_visceral_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval visceral muscle cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 802
filtered gene count: 158
total gene count: 7299
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, visceral muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_myoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic myoblast
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 9129
filtered gene count: 191
total gene count: 10457
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, myoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_inclusive_hindgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of inclusive hindgut primordium
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 2432
filtered gene count: 202
total gene count: 8635
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, inclusive hindgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_primordial_germ_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: primordial germ cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 17410
filtered gene count: 248
total gene count: 11290
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, primordial germ cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_stage_5_embryo_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of stage 5 embryo
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 9480
filtered gene count: 164
total gene count: 8457
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, stage 5 embryo cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_ectoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of ectoderm anlage
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 16921
filtered gene count: 249
total gene count: 11213
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, ectoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_amnioserosa_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of amnioserosa
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 8471
filtered gene count: 210
total gene count: 10664
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, amnioserosa cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_crystal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval crystal cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 237
filtered gene count: 169
total gene count: 5958
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, crystal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_neuroblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic neuroblast
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 21882
filtered gene count: 186
total gene count: 11629
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, neuroblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval muscle cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 6231
filtered gene count: 321
total gene count: 10751
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_glial_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval glial cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 944
filtered gene count: 189
total gene count: 7449
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, glial cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_peripheral_sensory_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: peripheral sensory precursor cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 3088
filtered gene count: 300
total gene count: 9245
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, peripheral sensory precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_mesoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of mesoderm anlage
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 3199
filtered gene count: 267
total gene count: 9092
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, mesoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_procrystal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: procrystal cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 1909
filtered gene count: 656
total gene count: 9739
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, procrystal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_epidermal_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval epidermal cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 39478
filtered gene count: 160
total gene count: 12577
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, epidermal cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_yolk_nuclei
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: yolk nucleus
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 21616
filtered gene count: 205
total gene count: 12093
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, yolk nuclei cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_epidermoblasts
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: epidermoblast
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 17065
filtered gene count: 173
total gene count: 11166
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, epidermoblasts cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_midgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval midgut cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 11851
filtered gene count: 242
total gene count: 11505
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, midgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_trunk_mesoderm_anlage_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of trunk mesoderm anlage
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 2240
filtered gene count: 175
total gene count: 9086
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, trunk mesoderm anlage cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_tracheal_precursor_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: tracheal precursor cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 3529
filtered gene count: 223
total gene count: 10450
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, tracheal precursor cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_tracheocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval tracheocyte
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 8175
filtered gene count: 163
total gene count: 10779
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, tracheocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_somatic_muscle_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic somatic muscle cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 14852
filtered gene count: 174
total gene count: 11398
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, somatic muscle cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_somatic_cell_of_endoderm_anlages
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of endoderm anlage
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 2451
filtered gene count: 267
total gene count: 8877
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, somatic cell of endoderm anlages cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_precursor_fat_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: precursor fat cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 5569
filtered gene count: 152
total gene count: 10185
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, precursor fat cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_plasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic/larval plasmatocyte
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 5611
filtered gene count: 159
total gene count: 9940
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, plasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_specialized_Malpighian_tubule_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: embryonic specialized Malpighian tubule cell
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 1145
filtered gene count: 185
total gene count: 8540
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, specialized Malpighian tubule cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_midgut_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval midgut primordium
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 3322
filtered gene count: 198
total gene count: 9019
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, midgut primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_proventriculus_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval proventriculus
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 2510
filtered gene count: 168
total gene count: 9243
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, proventriculus cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_midline_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of midline primordium
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 1261
filtered gene count: 229
total gene count: 7722
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, midline primordium cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_presumptive_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of presumptive embryonic salivary gland
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 498
filtered gene count: 174
total gene count: 6309
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, presumptive salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_PNS_neurons
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: larval PNS neuron
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 5029
filtered gene count: 223
total gene count: 9520
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, PNS neurons cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_proplasmatocytes
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: proplasmatocyte
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 1893
filtered gene count: 224
total gene count: 8350
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, proplasmatocytes cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_hindgut_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval hindgut
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 2711
filtered gene count: 171
total gene count: 9113
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, hindgut cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_salivary_gland_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of embryonic/larval salivary gland
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 3499
filtered gene count: 162
total gene count: 9489
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, salivary gland cells cluster
source: scRNAseq_2022_Calderon

scRNAseq_2022_Calderon_FULL_seq_clustering_salivary_gland_body_primordium_cells
type: NamedIndividual
type: transcriptional cell cluster
type: Restriction
  on property: composed primarily of
  some values from: somatic cell of salivary gland body primordium
part of: scRNAseq_2022_Calderon_FULL_seq_clustering
cell count: 1146
filtered gene count: 267
total gene count: 7795
node label: Cluster
definition: Consolidated clustering analysis of embryonic cells from all samples, salivary gland body primordium cells cluster
source: scRNAseq_2022_Calderon

FBrf0254247
type: NamedIndividual
node label: pub