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Update excluded-axioms.owl
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@Clare72
Clare72 committed Jun 9, 2022
1 parent 283beed commit e978b1a
Showing 1 changed file with 40 additions and 2 deletions.
42 changes: 40 additions & 2 deletions src/ontology/components/excluded-axioms.owl
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Expand Up @@ -23,9 +23,11 @@ AnnotationAssertion(obo:IAO_0000115 obo:BFO_0000062 "X preceded_by Y iff: end(Y)
AnnotationAssertion(obo:IAO_0000115 obo:BFO_0000062 "X preceded_by Y iff: end(Y) before_or_simultaneous_with start(X).")
AnnotationAssertion(obo:IAO_0000115 obo:CARO_0010004 "An individual member of a clade.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "ANON:ANON"^^xsd:string) obo:IAO_0000115 obo:CHEBI_33675 "A p-block molecular entity is a molecular entity containing one or more atoms of a p-block element.")
AnnotationAssertion(obo:IAO_0000115 obo:GO_0008150 "Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:go_curators"^^xsd:string) obo:IAO_0000115 obo:GO_0005575 "The part of a cell or its extracellular environment in which a gene product is located. A gene product may be located in one or more parts of a cell and its location may be as specific as a particular macromolecular complex, that is, a stable, persistent association of macromolecules that function together.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:mah") Annotation(oboInOwl:hasDbXref "ISBN:0198506732") obo:IAO_0000115 obo:GO_0005975 "The chemical reactions and pathways involving carbohydrates, any of a group of organic compounds based of the general formula Cx(H2O)y. Includes the formation of carbohydrate derivatives by the addition of a carbohydrate residue to another molecule.")
AnnotationAssertion(obo:IAO_0000115 obo:GO_0008150 "Any process specifically pertinent to the functioning of integrated living units: cells, tissues, organs, and organisms. A process is a collection of molecular events with a defined beginning and end.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:jl") Annotation(oboInOwl:hasDbXref "GOC:kmv") Annotation(oboInOwl:hasDbXref "GOC:krc") Annotation(oboInOwl:hasDbXref "GOC:tb") Annotation(oboInOwl:hasDbXref "ISBN:0387520546") Annotation(oboInOwl:hasDbXref "Wikipedia:Sexual_reproduction") obo:IAO_0000115 obo:GO_0019953 "A reproduction process that creates a new organism by combining the genetic material of two gametes, which may come from two organisms or from a single organism, in the case of self-fertilizing hermaphrodites, e.g. C. elegans, or self-fertilization in plants. It occurs both in eukaryotes and prokaryotes: in multicellular eukaryotic organisms, an individual is created anew; in prokaryotes, the initial cell has additional or transformed genetic material. In a process called genetic recombination, genetic material (DNA) originating from two gametes join up so that homologous sequences are aligned with each other, and this is followed by exchange of genetic information. After the new recombinant chromosome is formed, it is passed on to progeny.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "GOC:mtg_apoptosis") obo:IAO_0000115 obo:GO_0097190 "The series of molecular signals which triggers the apoptotic death of a cell. The pathway starts with reception of a signal, and ends when the execution phase of apoptosis is triggered.")
AnnotationAssertion(obo:IAO_0000115 obo:IAO_0000115 "The official OBI definition, explaining the meaning of a class or property. Shall be Aristotelian, formalized and normalized. Can be augmented with colloquial definitions."@en)
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "PATOC:GVG"^^xsd:string) obo:IAO_0000115 obo:PATO_0000001 "A dependent entity that inheres in a bearer by virtue of how the bearer is related to other entities")
AnnotationAssertion(obo:IAO_0000115 obo:PCO_0000000 "A material entity that consists of two or more organisms, viruses, or viroids.")
Expand Down Expand Up @@ -74,6 +76,7 @@ AnnotationAssertion(Annotation(oboInOwl:hasDbXref <https://orcid.org/0000-0002-6
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0000-0002-6601-2165") obo:IAO_0000115 obo:RO_0002493 "Relation between continuant and occurrent, such that c ceases to exist at the end of p.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref <http://orcid.org/0000-0002-6601-2165>) obo:IAO_0000115 obo:RO_0002551 "A relation between a subdivision of an organism and the single subdivision of skeleton that provides structural support for that subdivision.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "http://orcid.org/0000-0002-6601-2165") obo:IAO_0000115 obo:RO_0002551 "A relation between a subdivision of an organism and the single subdivision of skeleton that provides structural support for that subdivision.")
AnnotationAssertion(obo:IAO_0000115 obo:RO_0017001 "X utilizes Y means X and Y are material entities, and X is capable of some process P that has input Y.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "https://orcid.org/0000-0002-6601-2165") obo:IAO_0000115 obo:UBERON_0000092 "Stage succeeding embryo, including mature structure.")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref <https://orcid.org/0000-0002-6601-2165>) obo:IAO_0000115 obo:UBERON_0000092 "stage succeeding embryo, including mature structure")
AnnotationAssertion(Annotation(oboInOwl:hasDbXref "Wikipedia:Epiblast") Annotation(oboInOwl:hasDbXref "ZFIN:curator") obo:IAO_0000115 obo:UBERON_0002532 "In amniote animal embryology, the epiblast is a tissue type derived either from the inner cell mass in mammals or the blastodisc in birds and reptiles. It lies above the hypoblast. In mammalian embryogenesis, the columnar cells of the epiblast are adjacent to the trophoblast, while the cuboidal cells of the hypoblast are closer to the blastocoele. The epiblast, whilst referred to as the primary ectoderm, differentiates to form all three layers of the trilaminar germ disc in a process called gastrulation[WP]. The outer of the two layers of the blastoderm that form during gastrulation, corresponding to primitive ectoderm during gastrulation and to the definitive ectoderm after gastrulation[ZFA].")
Expand All @@ -94,12 +97,28 @@ AnnotationAssertion(rdfs:label obo:BFO_0000062 "preceded_by"^^xsd:string)
AnnotationAssertion(rdfs:label obo:BFO_0000063 "precedes")
AnnotationAssertion(rdfs:label obo:BFO_0000066 "occurs in")
AnnotationAssertion(rdfs:label obo:BFO_0000067 "contains process")
AnnotationAssertion(rdfs:label obo:BSPO_0000096 "anterior_to")
AnnotationAssertion(rdfs:label obo:BSPO_0000097 "distal_to")
AnnotationAssertion(rdfs:label obo:BSPO_0000098 "dorsal_to")
AnnotationAssertion(rdfs:label obo:BSPO_0000099 "posterior_to")
AnnotationAssertion(rdfs:label obo:BSPO_0000100 "proximal_to")
AnnotationAssertion(rdfs:label obo:BSPO_0000102 "ventral_to")
AnnotationAssertion(rdfs:label obo:BSPO_0000107 "deep_to")
AnnotationAssertion(rdfs:label obo:BSPO_0000108 "superficial_to")
AnnotationAssertion(rdfs:label obo:BSPO_0000120 "in_left_side_of")
AnnotationAssertion(rdfs:label obo:BSPO_0000121 "in_right_side_of")
AnnotationAssertion(rdfs:label obo:BSPO_0000122 "in_posterior_side_of")
AnnotationAssertion(rdfs:label obo:BSPO_0000123 "in_anterior_side_of")
AnnotationAssertion(rdfs:label obo:BSPO_0000126 "in_lateral_side_of")
AnnotationAssertion(rdfs:label obo:BSPO_0001106 "proximalmost_part_of")
AnnotationAssertion(rdfs:label obo:BSPO_0001107 "immediately_deep_to")
AnnotationAssertion(rdfs:label obo:CARO_0000000 "anatomical entity"@en)
AnnotationAssertion(rdfs:label obo:CARO_0000003 "connected anatomical structure"@en)
AnnotationAssertion(rdfs:label obo:CARO_0000006 "material anatomical entity"@en)
AnnotationAssertion(rdfs:label obo:CARO_0010004 "organism")
AnnotationAssertion(rdfs:label obo:CL_0000000 "cell"@en)
AnnotationAssertion(rdfs:label obo:GO_0005634 "nucleus"@en)
AnnotationAssertion(rdfs:label obo:GO_0010608 "posttranscriptional regulation of gene expression")
AnnotationAssertion(rdfs:label obo:GO_0044464 "cell part"@en)
AnnotationAssertion(rdfs:label obo:IAO_0000115 "definition"@en)
AnnotationAssertion(rdfs:label obo:IAO_0000115 "textual definition")
Expand All @@ -121,14 +140,19 @@ AnnotationAssertion(rdfs:label obo:RO_0000086 "has_quality")
AnnotationAssertion(rdfs:label obo:RO_0000086 "has quality")
AnnotationAssertion(rdfs:label obo:RO_0000087 "has role")
AnnotationAssertion(rdfs:label obo:RO_0001015 "location_of")
AnnotationAssertion(rdfs:label obo:RO_0001015 "location of")
AnnotationAssertion(rdfs:label obo:RO_0001019 "contains")
AnnotationAssertion(rdfs:label obo:RO_0001025 "located_in")
AnnotationAssertion(rdfs:label obo:RO_0001025 "located in")
AnnotationAssertion(rdfs:label obo:RO_0002000 "boundary of")
AnnotationAssertion(rdfs:label obo:RO_0002002 "has boundary")
AnnotationAssertion(rdfs:label obo:RO_0002002 "has 2D boundary")
AnnotationAssertion(rdfs:label obo:RO_0002005 "innervated_by")
AnnotationAssertion(rdfs:label obo:RO_0002007 "bounding layer of")
AnnotationAssertion(rdfs:label obo:RO_0002012 "occurrent_part_of")
AnnotationAssertion(rdfs:label obo:RO_0002082 "simultaneous_with")
AnnotationAssertion(rdfs:label obo:RO_0002082 "simultaneous with")
AnnotationAssertion(rdfs:label obo:RO_0002087 "immediately preceded by")
AnnotationAssertion(rdfs:label obo:RO_0002087 "immediately_preceded_by"^^xsd:string)
AnnotationAssertion(rdfs:label obo:RO_0002090 "ends_at_start_of")
AnnotationAssertion(rdfs:label obo:RO_0002090 "immediately_precedes")
Expand All @@ -137,17 +161,21 @@ AnnotationAssertion(rdfs:label obo:RO_0002093 "ends_during")
AnnotationAssertion(rdfs:label obo:RO_0002131 "overlaps")
AnnotationAssertion(rdfs:label obo:RO_0002134 "innervates")
AnnotationAssertion(rdfs:label obo:RO_0002150 "continuous_with")
AnnotationAssertion(rdfs:label obo:RO_0002150 "continuous with")
AnnotationAssertion(rdfs:label obo:RO_0002160 "only_in_taxon")
AnnotationAssertion(rdfs:label obo:RO_0002170 "connected to")
AnnotationAssertion(rdfs:label obo:RO_0002176 "connects")
AnnotationAssertion(rdfs:label obo:RO_0002177 "attaches_to_part_of")
AnnotationAssertion(rdfs:label obo:RO_0002177 "attached to part of")
AnnotationAssertion(rdfs:label obo:RO_0002178 "supplies")
AnnotationAssertion(rdfs:label obo:RO_0002179 "drains")
AnnotationAssertion(rdfs:label obo:RO_0002180 "has component")
AnnotationAssertion(rdfs:label obo:RO_0002180 "has_component")
AnnotationAssertion(rdfs:label obo:RO_0002202 "develops_from")
AnnotationAssertion(rdfs:label obo:RO_0002202 "develops from")
AnnotationAssertion(rdfs:label obo:RO_0002203 "develops_into")
AnnotationAssertion(rdfs:label obo:RO_0002207 "directly_develops_from")
AnnotationAssertion(rdfs:label obo:RO_0002207 "directly develops from")
AnnotationAssertion(rdfs:label obo:RO_0002211 "regulates")
AnnotationAssertion(rdfs:label obo:RO_0002212 "negatively regulates")
AnnotationAssertion(rdfs:label obo:RO_0002213 "positively regulates")
Expand All @@ -156,13 +184,16 @@ AnnotationAssertion(rdfs:label obo:RO_0002215 "capable_of")
AnnotationAssertion(rdfs:label obo:RO_0002216 "capable of part of")
AnnotationAssertion(rdfs:label obo:RO_0002216 "capable_of_part_of")
AnnotationAssertion(rdfs:label obo:RO_0002219 "surrounded_by")
AnnotationAssertion(rdfs:label obo:RO_0002219 "surrounded by")
AnnotationAssertion(rdfs:label obo:RO_0002220 "adjacent_to")
AnnotationAssertion(rdfs:label obo:RO_0002220 "adjacent to")
AnnotationAssertion(rdfs:label obo:RO_0002221 "surrounds")
AnnotationAssertion(rdfs:label obo:RO_0002223 "starts")
AnnotationAssertion(rdfs:label obo:RO_0002224 "starts with")
AnnotationAssertion(rdfs:label obo:RO_0002225 "develops_from_part_of")
AnnotationAssertion(rdfs:label obo:RO_0002225 "develops from part of")
AnnotationAssertion(rdfs:label obo:RO_0002226 "develops_in")
AnnotationAssertion(rdfs:label obo:RO_0002226 "develops in")
AnnotationAssertion(rdfs:label obo:RO_0002229 "ends")
AnnotationAssertion(rdfs:label obo:RO_0002230 "ends with")
AnnotationAssertion(rdfs:label obo:RO_0002231 "has start location")
Expand All @@ -172,8 +203,10 @@ AnnotationAssertion(rdfs:label obo:RO_0002234 "has output")
AnnotationAssertion(rdfs:label obo:RO_0002254 "has developmental contribution from")
AnnotationAssertion(rdfs:label obo:RO_0002255 "developmentally_contributes_to")
AnnotationAssertion(rdfs:label obo:RO_0002256 "developmentally_induced_by")
AnnotationAssertion(rdfs:label obo:RO_0002256 "developmentally induced by")
AnnotationAssertion(rdfs:label obo:RO_0002258 "developmentally preceded by")
AnnotationAssertion(rdfs:label obo:RO_0002285 "developmentally_replaces")
AnnotationAssertion(rdfs:label obo:RO_0002285 "developmentally replaces")
AnnotationAssertion(rdfs:label obo:RO_0002295 "results in developmental progression of")
AnnotationAssertion(rdfs:label obo:RO_0002296 "results in development of")
AnnotationAssertion(rdfs:label obo:RO_0002297 "results in formation of")
Expand All @@ -190,16 +223,21 @@ AnnotationAssertion(rdfs:label obo:RO_0002336 "positively regulated by")
AnnotationAssertion(rdfs:label obo:RO_0002338 "has target start location")
AnnotationAssertion(rdfs:label obo:RO_0002339 "has target end location")
AnnotationAssertion(rdfs:label obo:RO_0002341 "results in transport along")
AnnotationAssertion(rdfs:label obo:RO_0002342 "results in transport across")
AnnotationAssertion(rdfs:label obo:RO_0002343 "results in growth of")
AnnotationAssertion(rdfs:label obo:RO_0002344 "results in transport to from or in")
AnnotationAssertion(rdfs:label obo:RO_0002350 "member of")
AnnotationAssertion(rdfs:label obo:RO_0002351 "has member")
AnnotationAssertion(rdfs:label obo:RO_0002352 "input of")
AnnotationAssertion(rdfs:label obo:RO_0002353 "output of")
AnnotationAssertion(rdfs:label obo:RO_0002371 "attaches_to")
AnnotationAssertion(rdfs:label obo:RO_0002371 "attached to")
AnnotationAssertion(rdfs:label obo:RO_0002373 "has_muscle_insertion")
AnnotationAssertion(rdfs:label obo:RO_0002373 "has muscle insertion")
AnnotationAssertion(rdfs:label obo:RO_0002376 "tributary_of")
AnnotationAssertion(rdfs:label obo:RO_0002376 "tributary of")
AnnotationAssertion(rdfs:label obo:RO_0002380 "branching_part_of")
AnnotationAssertion(rdfs:label obo:RO_0002380 "branching part of")
AnnotationAssertion(rdfs:label obo:RO_0002385 "has potential to developmentally contribute to")
AnnotationAssertion(rdfs:label obo:RO_0002387 "has potential to develop into")
AnnotationAssertion(rdfs:label obo:RO_0002388 "has potential to directly develop into")
Expand All @@ -214,7 +252,7 @@ AnnotationAssertion(rdfs:label obo:RO_0003001 "produced by")
AnnotationAssertion(rdfs:label obo:RO_0003001 "produced_by")
AnnotationAssertion(rdfs:label obo:RO_0012003 "acts on population of")
AnnotationAssertion(rdfs:label obo:RO_0012008 "results in fusion of")

AnnotationAssertion(rdfs:label obo:RO_0017001 "utilizes"@en)


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