diff --git a/src/mappings/fbbt.sssom.tsv b/src/mappings/fbbt.sssom.tsv index 1183babe8..a4c507fbf 100644 --- a/src/mappings/fbbt.sssom.tsv +++ b/src/mappings/fbbt.sssom.tsv @@ -1,17 +1,17 @@ #curie_map: -# CL: "http://purl.obolibrary.org/obo/CL_" -# FBbt: "http://purl.obolibrary.org/obo/FBbt_" -# ORCID: "https://orcid.org/" -# obo: "http://purl.obolibrary.org/obo/" -#mapping_set_id: "http://purl.obolibrary.org/obo/fbbt/fbbt-mappings.sssom.tsv" -#mapping_set_description: "Mappings between the Drosophila Anatomy Ontology and foreign ontologies." +# CL: http://purl.obolibrary.org/obo/CL_ +# FBbt: http://purl.obolibrary.org/obo/FBbt_ +# ORCID: https://orcid.org/ +# obo: http://purl.obolibrary.org/obo/ +#mapping_set_id: http://purl.obolibrary.org/obo/fbbt/fbbt-mappings.sssom.tsv +#mapping_set_description: Mappings between the Drosophila Anatomy Ontology and foreign ontologies. #creator_id: -# - "ORCID:0000-0002-1373-1705" -# - "ORCID:0000-0002-6095-8718" -#license: "https://creativecommons.org/licenses/by/4.0/" -#subject_source: "obo:fbbt.owl" -#object_source: "obo:cl.owl" -#mapping_date: "2024-07-12" +# - ORCID:0000-0002-1373-1705 +# - ORCID:0000-0002-6095-8718 +#license: https://creativecommons.org/licenses/by/4.0/ +#subject_source: obo:fbbt.owl +#object_source: obo:cl.owl +#mapping_date: 2024-07-12 subject_id subject_label predicate_id object_id mapping_justification FBbt:00000092 primordial germ cell semapv:crossSpeciesExactMatch CL:0000301 semapv:ManualMappingCuration FBbt:00000124 epithelial cell semapv:crossSpeciesExactMatch CL:0000066 semapv:ManualMappingCuration diff --git a/src/ontology/cl-edit.owl b/src/ontology/cl-edit.owl index 8de17e439..56bd5fadd 100644 --- a/src/ontology/cl-edit.owl +++ b/src/ontology/cl-edit.owl @@ -3042,6 +3042,8 @@ Declaration(Class(obo:CL_4033085)) Declaration(Class(obo:CL_4033086)) Declaration(Class(obo:CL_4033087)) Declaration(Class(obo:CL_4033088)) +Declaration(Class(obo:CL_4033089)) +Declaration(Class(obo:CL_4033090)) Declaration(Class(obo:CL_4040000)) Declaration(Class(obo:CL_4040001)) Declaration(Class(obo:CL_4040002)) @@ -3356,7 +3358,7 @@ AnnotationAssertion(rdfs:label obo:IAO_0000115 "definition") AnnotationAssertion(rdfs:label obo:IAO_0000424 "expand expression to") -# Annotation Property: obo:IAO_0000700 (has ontology root term) +# Annotation Property: obo:IAO_0000700 (preferred_root) AnnotationAssertion(rdfs:label obo:IAO_0000700 "preferred_root") @@ -3450,11 +3452,11 @@ AnnotationAssertion(rdfs:label oboInOwl:hasBroadSynonym "has_broad_synonym") AnnotationAssertion(rdfs:label oboInOwl:hasDbXref "database_cross_reference") -# Annotation Property: oboInOwl:hasExactSynonym (has exact synonym) +# Annotation Property: oboInOwl:hasExactSynonym (has_exact_synonym) AnnotationAssertion(rdfs:label oboInOwl:hasExactSynonym "has_exact_synonym") -# Annotation Property: oboInOwl:hasNarrowSynonym (has narrow synonym) +# Annotation Property: oboInOwl:hasNarrowSynonym (has_narrow_synonym) AnnotationAssertion(rdfs:label oboInOwl:hasNarrowSynonym "has_narrow_synonym") @@ -9420,7 +9422,7 @@ SubClassOf(obo:CL_0000677 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_000127 # Class: obo:CL_0000678 (commissural neuron) -AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:31693445") Annotation(oboInOwl:hasDbXref "PMID:17560562") obo:IAO_0000115 obo:CL_0000678 "A neuron with soma location in the central nervous system that project its axon to the contralateral side of a central nervous system. This neuron can have its soma in the spinal cord, in the hemisphere of the brain, in the retina or in the ventral nerve cord of invertebrates.") +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:17560562") Annotation(oboInOwl:hasDbXref "PMID:31693445") obo:IAO_0000115 obo:CL_0000678 "A neuron with soma location in the central nervous system that project its axon to the contralateral side of a central nervous system. This neuron can have its soma in the spinal cord, in the hemisphere of the brain, in the retina or in the ventral nerve cord of invertebrates.") AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:25960414") Annotation(oboInOwl:hasDbXref "PMID:27532244") Annotation(oboInOwl:hasDbXref "PMID:31514748") Annotation(oboInOwl:hasDbXref "PMID:33438755") rdfs:comment obo:CL_0000678 "Historically, commissural neurons, particularly in the spinal cord, have been used as a model to understand axon guidance during development.") AnnotationAssertion(rdfs:label obo:CL_0000678 "commissural neuron") SubClassOf(obo:CL_0000678 obo:CL_0000540) @@ -32221,6 +32223,24 @@ AnnotationAssertion(rdfs:label obo:CL_4033088 "decidual resident macrophage") SubClassOf(obo:CL_4033088 obo:CL_4033087) SubClassOf(obo:CL_4033088 ObjectSomeValuesFrom(obo:BFO_0000050 obo:UBERON_0002450)) +# Class: obo:CL_4033089 (atretic follicular cell of ovary) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:38069168") obo:IAO_0000115 obo:CL_4033089 "A follicular cell of ovary that has begun to degenerate and undergo atresia, a specialized apoptosis. This cell is found in an atretic follicle, which is an ovarian follicle that started to mature but failed to reach full development and instead regresses.") +AnnotationAssertion(terms:contributor obo:CL_4033089 ) +AnnotationAssertion(terms:date obo:CL_4033089 "2024-11-05T11:23:25Z"^^xsd:dateTime) +AnnotationAssertion(rdfs:label obo:CL_4033089 "atretic follicular cell of ovary") +EquivalentClasses(obo:CL_4033089 ObjectIntersectionOf(obo:CL_0002174 ObjectSomeValuesFrom(obo:RO_0000056 obo:GO_0001552))) + +# Class: obo:CL_4033090 (atretic granulosa cell) + +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:15353131") Annotation(oboInOwl:hasDbXref "PMID:38069168") obo:IAO_0000115 obo:CL_4033090 "A granulosa cell that is undergoing atresia. This cell type displays distinct morphological alterations compared with a healthy granulosa cell, including pyknosis (nuclear condensation) and cellular shrinkage.") +AnnotationAssertion(terms:contributor obo:CL_4033090 ) +AnnotationAssertion(terms:date obo:CL_4033090 "2024-11-05T11:25:28Z"^^xsd:dateTime) +AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:15353131") oboInOwl:hasRelatedSynonym obo:CL_4033090 "apoptotic granulosa cell") +AnnotationAssertion(rdfs:label obo:CL_4033090 "atretic granulosa cell") +SubClassOf(obo:CL_4033090 obo:CL_4033089) +SubClassOf(obo:CL_4033090 ObjectSomeValuesFrom(obo:RO_0002202 obo:CL_0000501)) + # Class: obo:CL_4040000 (glial restricted tripotential precursor cell) AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PMID:10719353") obo:IAO_0000115 obo:CL_4040000 "A glial precursor cell that generates oligodendrocytes and type-1 and type-2 astrocytes. It has been shown in some mammals that this cell type may express A2B5, nestin, FGFR-1, FGFR-2, FGFR-3, PLP, and DM-20 antigens. Unlike oligodendrocyte precursor cell, it does not initially express PDGFR-alpha and can differentiate into both type-1 and type-2 astrocytes.") diff --git a/src/ontology/imports/go_terms.txt b/src/ontology/imports/go_terms.txt index 5bf1da2a1..8c76ed7eb 100644 --- a/src/ontology/imports/go_terms.txt +++ b/src/ontology/imports/go_terms.txt @@ -15,4 +15,4 @@ GO:1990573 GO:0045428 GO:0005927 GO:0050893 - +GO:0001552 diff --git a/src/ontology/imports/merged_import.owl b/src/ontology/imports/merged_import.owl index 83cdc6373..f1b2e074b 100644 --- a/src/ontology/imports/merged_import.owl +++ b/src/ontology/imports/merged_import.owl @@ -7,8 +7,8 @@ Prefix(rdfs:=) Ontology( - -Annotation(owl:versionInfo "2024-10-30") + +Annotation(owl:versionInfo "2024-11-05") Declaration(Class()) Declaration(Class()) @@ -45,6 +45,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -711,6 +712,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -6218,6 +6220,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -8066,6 +8069,9 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) +Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -8657,6 +8663,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -8712,6 +8719,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -8761,7 +8769,7 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) -Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -8790,6 +8798,8 @@ Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) +Declaration(Class()) +Declaration(Class()) Declaration(Class()) Declaration(Class()) Declaration(Class()) @@ -17829,6 +17839,17 @@ SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) +# Class: (ovarian follicle atresia) + +AnnotationAssertion(Annotation( "GOC:mtg_apoptosis") Annotation( "PMID:18638134") "A periodic process in which immature ovarian follicles degenerate and are subsequently re-absorbed.") +AnnotationAssertion( "biological_process") +AnnotationAssertion( "GO:0001552") +AnnotationAssertion(rdfs:label "ovarian follicle atresia") +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) +SubClassOf( ObjectSomeValuesFrom( )) + # Class: (luteinization) AnnotationAssertion(Annotation( "https://www.ncbi.nlm.nih.gov/books/NBK279054/") "The set of processes resulting in differentiation of theca and granulosa cells into luteal cells and in the formation of a corpus luteum after ovulation.") @@ -86067,6 +86088,23 @@ AnnotationAssertion(rdfs:label "apop SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +# Class: (extrinsic apoptotic signaling pathway) + +AnnotationAssertion(Annotation( "GOC:mtg_apoptosis") Annotation( "GOC:yaf") Annotation( "PMID:17340152") "The series of molecular signals in which a signal is conveyed from the cell surface to trigger the apoptotic death of a cell. The pathway starts with either a ligand binding to a cell surface receptor, or a ligand being withdrawn from a cell surface receptor (e.g. in the case of signaling by dependence receptors), and ends when the execution phase of apoptosis is triggered.") +AnnotationAssertion( "pr") +AnnotationAssertion( "2011-11-23T09:34:28Z") +AnnotationAssertion( "extrinsic apoptotic pathway") +AnnotationAssertion(Annotation( "GOC:mah") "extrinsic apoptotic signalling pathway") +AnnotationAssertion( "death receptor-mediated apoptosis") +AnnotationAssertion( "extrinsic apoptosis") +AnnotationAssertion( "extrinsic apoptotic signaling pathway in presence of ligand") +AnnotationAssertion( "biological_process") +AnnotationAssertion( "GO:0097191") +AnnotationAssertion(rdfs:comment "Fas acts as a death receptor with a role in apoptosis, but can also act as a non-apoptotic signal transducer.") +AnnotationAssertion(rdfs:label "extrinsic apoptotic signaling pathway") +SubClassOf( ) +SubClassOf( ) + # Class: (execution phase of apoptosis) AnnotationAssertion(Annotation( "GOC:mtg_apoptosis") Annotation( "PMID:21760595") "A stage of the apoptotic process that starts with the controlled breakdown of the cell through the action of effector caspases or other effector molecules (e.g. cathepsins, calpains etc.). Key steps of the execution phase are rounding-up of the cell, retraction of pseudopodes, reduction of cellular volume (pyknosis), chromatin condensation, nuclear fragmentation (karyorrhexis), plasma membrane blebbing and fragmentation of the cell into apoptotic bodies. When the execution phase is completed, the cell has died.") @@ -113558,6 +113596,42 @@ SubClassOf( ObjectSomeValuesFrom( ObjectSomeValuesFrom( )) DisjointClasses( ObjectSomeValuesFrom( )) +# Class: (regulation of extrinsic apoptotic signaling pathway) + +AnnotationAssertion(Annotation( "GOC:mtg_apoptosis") "Any process that modulates the frequency, rate or extent of extrinsic apoptotic signaling pathway.") +AnnotationAssertion( "pr") +AnnotationAssertion( "2011-11-24T01:30:05Z") +AnnotationAssertion(Annotation( "GOC:mah") "regulation of extrinsic apoptotic signalling pathway") +AnnotationAssertion( "regulation of extrinsic apoptosis") +AnnotationAssertion( "biological_process") +AnnotationAssertion( "GO:2001236") +AnnotationAssertion(rdfs:label "regulation of extrinsic apoptotic signaling pathway") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) + +# Class: (negative regulation of extrinsic apoptotic signaling pathway) + +AnnotationAssertion(Annotation( "GOC:mtg_apoptosis") "Any process that stops, prevents or reduces the frequency, rate or extent of extrinsic apoptotic signaling pathway.") +AnnotationAssertion( "pr") +AnnotationAssertion( "2011-11-24T01:30:11Z") +AnnotationAssertion(Annotation( "GOC:mah") "negative regulation of extrinsic apoptotic signalling pathway") +AnnotationAssertion( "negative regulation of extrinsic apoptosis") +AnnotationAssertion( "biological_process") +AnnotationAssertion( "GO:2001237") +AnnotationAssertion(rdfs:label "negative regulation of extrinsic apoptotic signaling pathway") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) + +# Class: (positive regulation of extrinsic apoptotic signaling pathway) + +AnnotationAssertion(Annotation( "GOC:mtg_apoptosis") "Any process that activates or increases the frequency, rate or extent of extrinsic apoptotic signaling pathway.") +AnnotationAssertion( "pr") +AnnotationAssertion( "2011-11-24T01:30:16Z") +AnnotationAssertion(Annotation( "GOC:mah") "positive regulation of extrinsic apoptotic signalling pathway") +AnnotationAssertion( "positive regulation of extrinsic apoptosis") +AnnotationAssertion( "biological_process") +AnnotationAssertion( "GO:2001238") +AnnotationAssertion(rdfs:label "positive regulation of extrinsic apoptotic signaling pathway") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) + # Class: (negative regulation of chromosome organization) AnnotationAssertion(Annotation( "GOC:obol") "Any process that stops, prevents or reduces the frequency, rate or extent of chromosome organization.") @@ -117247,10 +117321,10 @@ AnnotationAssertion(Annotation( "IEDB:BP") "native protein") AnnotationAssertion( "protein") AnnotationAssertion( "PR:000000001") -AnnotationAssertion(rdfs:comment "The definition above excludes protein complexes, which some also consider a protein. Those who wish to refer to a class representing both senses of the word are directed to CHEBI:36080. Note that the definition allows for experimentally-manipulated genes, and allows for artifically-produced derivatives that mimic those found naturally. Proteins (in the sense defined here) that descended from a common ancestor can be classified into families and superfamilies composed of products of evolutionarily-related genes. The domain architecture of a protein is described by the order of its constituent domains. Proteins with the same domains in the same order are defined as homeomorphic [PRO:WCB].") +AnnotationAssertion(rdfs:comment "The definition above excludes protein complexes, which some also consider a protein. Those who wish to refer to a class representing both senses of the word are directed to CHEBI:36080. Note that the definition allows for experimentally-manipulated genes, and allows for artifically-produced derivatives that mimic those found naturally. Proteins (in the sense defined here) that descended from a common ancestor can be classified into families and superfamilies composed of products of evolutionarily-related genes. The domain architecture of a protein is described by the order of its constituent domains. Proteins with the same domains in the same order are defined as homeomorphic [PRO:WCB).") AnnotationAssertion(rdfs:label "protein") SubClassOf( ) -SubClassOf( ) +SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) SubClassOf( ObjectSomeValuesFrom( )) @@ -118833,7 +118907,6 @@ SubClassOf( (prominin) AnnotationAssertion(Annotation( "InterPro:IPR008795") Annotation( "PMID:11467842") "A protein with core architecture consisting of one Prominin (Pfam:PF05478) domain. The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and human prominin and prominin-like 1 are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain.") -AnnotationAssertion( "PANTHER:PTHR22730") AnnotationAssertion( "PIRSF:PIRSF017831") AnnotationAssertion( "protein") AnnotationAssertion( "PR:000001785") @@ -121238,6 +121311,18 @@ AnnotationAssertion(rdfs:comment " AnnotationAssertion(rdfs:label "proenkephalin-B") SubClassOf( ) +# Class: (pro-opiomelanocortin) + +AnnotationAssertion(Annotation( "PRO:DNx") "A protein that is a translation product of the human POMC gene or a 1:1 ortholog thereof.") +AnnotationAssertion(Annotation( "PRO:DNx") Annotation( ) "POMC") +AnnotationAssertion( "corticotropin-lipotropin") +AnnotationAssertion( "protein") +AnnotationAssertion(Annotation( ) "Pomc1") +AnnotationAssertion( "PR:000013015") +AnnotationAssertion(rdfs:comment "Category=gene.") +AnnotationAssertion(rdfs:label "pro-opiomelanocortin") +SubClassOf( ) + # Class: (POU domain, class 6, transcription factor 2) AnnotationAssertion(Annotation( "PRO:DNx") "A protein that is a translation product of the human POU6F2 gene or a 1:1 ortholog thereof.") @@ -121983,6 +122068,19 @@ SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +# Class: (pro-opiomelanocortin proteolytic cleavage product) + +AnnotationAssertion(Annotation( "PRO:DNx") "A pro-opiomelanocortin that has been processed by proteolytic cleavage.") +AnnotationAssertion(Annotation( "PRO:DNx") Annotation( ) "POMC/ClvPrd") +AnnotationAssertion( "protein") +AnnotationAssertion( "PR:000021036") +AnnotationAssertion(rdfs:comment "Category=modification.") +AnnotationAssertion(rdfs:label "pro-opiomelanocortin proteolytic cleavage product") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) + # Class: (bone marrow proteoglycan, signal peptide removed form) AnnotationAssertion(Annotation( "PRO:DNx") "A bone marrow proteoglycan that has had the signal peptide removed.") @@ -122576,20 +122674,20 @@ SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) -# Class: (protein-containing material entity) - -AnnotationAssertion(Annotation( "PRO:DAN") "A material entity that minimally consists of a protein.") -AnnotationAssertion(Annotation( "PRO:DAN") "protein") -AnnotationAssertion(Annotation( "PRO:DAN") "protein aggregate") -AnnotationAssertion(Annotation( "PRO:DAN") "protein complex") -AnnotationAssertion(Annotation( "PRO:DAN") "protein-containing complex") -AnnotationAssertion( "protein") -AnnotationAssertion( "PR:000050567") -AnnotationAssertion(rdfs:comment "Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050566).") -AnnotationAssertion(rdfs:label "protein-containing material entity") -EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) -SubClassOf( ) -SubClassOf( ObjectSomeValuesFrom( )) +# Class: (protein-containing molecular entity) + +AnnotationAssertion(Annotation( "PRO:DAN") "A molecular entity that minimally consists of a protein.") +AnnotationAssertion(Annotation( "PRO:DAN") "protein") +AnnotationAssertion(Annotation( "PRO:DAN") "protein aggregate") +AnnotationAssertion(Annotation( "PRO:DAN") "protein complex") +AnnotationAssertion(Annotation( "PRO:DAN") "protein-containing complex") +AnnotationAssertion( "protein") +AnnotationAssertion( "PR:000064867") +AnnotationAssertion(rdfs:comment "Note: This includes single proteins and derivatives thereof (PR:000000001), protein-containing complexes (GO:0032991), and protein aggregates (PR:000050565).") +AnnotationAssertion(rdfs:label "protein-containing molecular entity") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) # Class: (SCO-spondin (human)) @@ -122845,7 +122943,7 @@ SubClassOf( ObjectSomeValuesFrom( (natural killer cells antigen CD94 (mouse)) -AnnotationAssertion(Annotation( "OMA:O54707") Annotation( "PANTHER:PTHR22800:SF15") Annotation( "PRO:DNx") "A killer cell lectin-like receptor subfamily D member 1 that is encoded in the genome of mouse.") +AnnotationAssertion(Annotation( "OMA:O54707") Annotation( "PRO:DNx") "A killer cell lectin-like receptor subfamily D member 1 that is encoded in the genome of mouse.") AnnotationAssertion( "UniProtKB:O54707") AnnotationAssertion(Annotation( "UniProtKB:O54707") "CD94 (mouse)") AnnotationAssertion(Annotation( "UniProtKB:O54707") "killer cell lectin-like receptor subfamily D member 1 (mouse)") @@ -122946,7 +123044,7 @@ SubClassOf( ObjectSomeValuesFrom( (CD83 antigen (mouse)) -AnnotationAssertion(Annotation( "OMA:O88324") Annotation( "PANTHER:PTHR15193:SF0") Annotation( "PRO:DNx") "A CD83 molecule that is encoded in the genome of mouse.") +AnnotationAssertion(Annotation( "OMA:O88324") Annotation( "PRO:DNx") "A CD83 molecule that is encoded in the genome of mouse.") AnnotationAssertion( "UniProtKB:O88324") AnnotationAssertion(Annotation( "UniProtKB:O88324") "CD83 (mouse)") AnnotationAssertion(Annotation( "PRO:DNx") Annotation( ) "mCD83") @@ -123044,6 +123142,7 @@ SubClassOf( ObjectSomeValuesFrom( (eomesodermin homolog (human)) AnnotationAssertion(Annotation( "PRO:CNA") Annotation( "UniProtKB:O95936") "An eomesodermin that is encoded in the genome of human.") +AnnotationAssertion(Annotation(rdfs:label "PR:O95936 located_in GO:0005654") "Reactome:R-HSA-452232") AnnotationAssertion( "UniProtKB:O95936") AnnotationAssertion(Annotation( "UniProtKB:O95936") "T-box brain protein 2 (human)") AnnotationAssertion(Annotation( "UniProtKB:O95936") "T-brain-2 (human)") @@ -123138,6 +123237,40 @@ SubClassOf( ) SubClassOf( ObjectSomeValuesFrom( )) +# Class: (pro-opiomelanocortin (human)) + +AnnotationAssertion(Annotation( "PRO:DNx") Annotation( "UniProtKB:P01189") "A pro-opiomelanocortin that is encoded in the genome of human.") +AnnotationAssertion( "UniProtKB:P01189") +AnnotationAssertion(Annotation( "UniProtKB:P01189") "corticotropin-lipotropin (human)") +AnnotationAssertion(Annotation( "PRO:DNx") Annotation( ) "hPOMC") +AnnotationAssertion( "protein") +AnnotationAssertion(Annotation( "UniProtKB:P01189") Annotation( ) "POMC") +AnnotationAssertion( "PR:P01189") +AnnotationAssertion(rdfs:comment "Category=organism-gene.") +AnnotationAssertion(rdfs:label "pro-opiomelanocortin (human)") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) + +# Class: (pro-opiomelanocortin (mouse)) + +AnnotationAssertion(Annotation( "OMA:P01193") Annotation( "PRO:DNx") "A pro-opiomelanocortin that is encoded in the genome of mouse.") +AnnotationAssertion( "UniProtKB:P01193") +AnnotationAssertion(Annotation( "UniProtKB:P01193") "POMC (mouse)") +AnnotationAssertion(Annotation( "UniProtKB:P01193") "corticotropin-lipotropin (mouse)") +AnnotationAssertion(Annotation( "PRO:DNx") Annotation( ) "mPOMC") +AnnotationAssertion( "protein") +AnnotationAssertion(Annotation( "UniProtKB:P01193") Annotation( ) "Pomc") +AnnotationAssertion(Annotation( "UniProtKB:P01193") Annotation( ) "Pomc1") +AnnotationAssertion( "PR:P01193") +AnnotationAssertion(rdfs:comment "Category=organism-gene.") +AnnotationAssertion(rdfs:label "pro-opiomelanocortin (mouse)") +EquivalentClasses( ObjectIntersectionOf( ObjectSomeValuesFrom( ))) +SubClassOf( ) +SubClassOf( ) +SubClassOf( ObjectSomeValuesFrom( )) + # Class: (proenkephalin-B (human)) AnnotationAssertion(Annotation( "PRO:DNx") Annotation( "UniProtKB:P01213") "A proenkephalin-B that is encoded in the genome of human.") @@ -126892,7 +127025,7 @@ AnnotationAssertion(Annotation( "ADP-ribosyl cyclase 1 (human)") AnnotationAssertion(Annotation( "UniProtKB:P28907") "ADPRC 1 (human)") AnnotationAssertion(Annotation( "UniProtKB:P28907") "T10 (human)") -AnnotationAssertion(Annotation( "UniProtKB:P28907") "cADPr hydrolase 1 (human)") +AnnotationAssertion(Annotation( "UniProtKB:P28907") "cADPR hydrolase 1 (human)") AnnotationAssertion(Annotation( "UniProtKB:P28907") "cyclic ADP-ribose hydrolase 1 (human)") AnnotationAssertion(Annotation( "PRO:DNx") Annotation( ) "hCD38") AnnotationAssertion( "protein") @@ -128351,7 +128484,7 @@ AnnotationAssertion(Annotation( "UniProtKB:P56528") "CD38 (mouse)") AnnotationAssertion(Annotation( "UniProtKB:P56528") "I-19 (mouse)") AnnotationAssertion(Annotation( "UniProtKB:P56528") "NIM-R5 antigen (mouse)") -AnnotationAssertion(Annotation( "UniProtKB:P56528") "cADPr hydrolase 1 (mouse)") +AnnotationAssertion(Annotation( "UniProtKB:P56528") "cADPR hydrolase 1 (mouse)") AnnotationAssertion(Annotation( "UniProtKB:P56528") "cyclic ADP-ribose hydrolase 1 (mouse)") AnnotationAssertion(Annotation( "PRO:DNx") Annotation( ) "mCD38") AnnotationAssertion( "protein") diff --git a/src/ontology/imports/pr_terms.txt b/src/ontology/imports/pr_terms.txt index 9d51117ae..1aa01315a 100644 --- a/src/ontology/imports/pr_terms.txt +++ b/src/ontology/imports/pr_terms.txt @@ -49,3 +49,4 @@ PR:000013047 PR:000016626 PR:000003472 PR:000012318 +PR:000064867 \ No newline at end of file diff --git a/src/patterns/definitions.owl b/src/patterns/definitions.owl index bb55b889a..d901aaa94 100644 --- a/src/patterns/definitions.owl +++ b/src/patterns/definitions.owl @@ -7,8 +7,8 @@ Prefix(rdfs:=) Ontology( - -Annotation(owl:versionInfo "2024-10-30") + +Annotation(owl:versionInfo "2024-11-05") Declaration(Class()) Declaration(Class())