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curies-to-categories.yaml
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---
prefix-mappings:
biolink: named thing # formerly ontology class
BSPO: named thing # formerly relationship type
CL: anatomical entity
CPT: procedure
DOID: disease
DDANAT: anatomical entity
EHDAA2: anatomical entity
FAO: anatomical entity
GAZ: geographic location
GOREL: named thing # formerly relationship type
HCPCS: procedure
HGNC: gene
IAO: information content entity
ICD10: disease
MGI: gene
MI: information content entity
NCBIGene: gene
NCBITaxon: organism taxon
OBO: named thing # formerly relationship type
OMIM: phenotypic feature
PATO: phenotypic feature
PR: protein
PW: pathway
RGD: gene
RO: named thing # formerly relationship type
RXNORM: drug
sgd: gene
SIO: named thing # formerly relationship type
skos: named thing # formerly ontology class
SYMP: phenotypic feature
UBERON: anatomical entity
UBPROP: information content entity
UniProtKB: protein
term-mappings:
rdfs:isDefinedBy: named thing # formerly relationship type
OIO:inSubset: named thing # formerly relationship type
OIO:ObsoleteClass: named thing # formerly ontology class
OIO:hasRelatedSynonym: named thing # formerly relationship type
OIO:hasBroadSynonym: named thing # formerly relationship type
OIO:hasExactSynonym: named thing # formerly relationship type
OIO:hasDbXref: named thing # formerly relationship type
OIO:hasOBOFormatVersion: named thing # formerly relationship type
OIO:SubsetProperty: named thing
OIO:shorthand: named thing # formerly relationship type
owl:topObjectProperty: information content entity
OBO:ro/subsets#ro-eco: named thing # formerly relationship type
BFO:0000001: named thing
BFO:0000030: physical entity
BFO:0000040: physical entity
BFO:0000050: named thing # formerly relationship type
BFO:0000051: named thing # formerly relationship type
BFO:0000053: named thing # formerly relationship type
BFO:0000054: named thing # formerly relationship type
BFO:0000055: named thing # formerly relationship type
BFO:0000056: named thing # formerly relationship type
BFO:0000057: named thing # formerly relationship type
BFO:0000060: named thing # formerly relationship type
BFO:0000061: named thing # formerly relationship type
BFO:0000062: named thing # formerly relationship type
BFO:0000063: named thing # formerly relationship type
BFO:0000066: named thing # formerly relationship type
BFO:0000067: named thing # formerly relationship type
BFO:0000068: named thing # formerly relationship type
BFO:0000069: named thing # formerly relationship type
CARO:0000003: anatomical entity
CHEBI:2709: chemical entity # formerly chemical substance
CHEBI:23367: molecular entity
CHEBI:23888: drug
CHEBI:24431: molecular entity
CHEBI:24432: biological entity
CHEBI:25212: small molecule # formerly metabolite
CHEBI:33232: chemical entity # formerly chemical substance
CHEBI:33697: RNA product
CHEBI:36342: chemical entity # formerly chemical substance
CHEBI:51086: chemical entity # formerly chemical substance
CHEBI:78295: chemical mixture # formerly food component
CHEBI:50906: biological process
CHEBI:59999: small molecule
CL:0000000: anatomical entity
# dcid:Allele: sequence variant
# dcid:BiologicalSpecies: organism taxon
# dcid:ChemicalCompound: chemical mixture
# dcid:Chromosome: nucleic acid entity
# dcid:Dataset: dataset
# dcid:Disease: disease
# dcid:DiseaseGeneAssociation: information content entity
# dcid:DiseaseSymptomAssociation: information content entity
# dcid:Drug: drug
# dcid:Gene: gene
# dcid:GenomeAnnotation: nucleic acid entity
# dcid:GenomeAssemblyUnit: genome
# dcid:GeologicalEvent: geographic exposure
# dcid:IceStormEvent: geographic exposure
# dcid:LakeEffectSnowEvent: genographic exposure
# dcid:LandslideEvent: geographic exposure
# dcid:MarineDenseFogEvent: geographic exposure
# dcid:MarineStrongWindEvent: geographic exposure
# dcid:MarineThunderstormWindEvent: geographic exposure
# dcid:MedicalProcedure: procedure
# dcid:MeSHTerm: information content entity
# dcid:ProteinProteinInteraction: pairwise gene to gene interaction
# dcid:RNATranscript: transcript
# dcid:StormEvent: geographic exposure
# dcid:StormSurgeTideEvent: geographic exposure
# dcid:StrongWindEvent: geographic exposure
# dcid:Thing: named thing
# dcid:ThunderstormEvent: geographic exposure
# dcid:TornadoEvent: geographic exposure
# dcid:TropicalDepressionEvent: geographic exposure
# dcid:WinterStormEvent: geographic exposure
EFO:0000324: cell
EFO:0000408: disease
EFO:0000635: anatomical entity
EFO:0001434: material sample
EFO:0004423: exon
EFO:0004446: molecular entity
EFO:0005066: material sample
EFO:0009708: pathological process
ENVO:02500000: environmental process
ENVO:00002297: environmental feature
FMA:29733: anatomical entity
FMA:62955: anatomical entity
FMA:63887: biological entity
FMA:67257: protein
FMA:50592: physical entity
FMA:85802: information content entity
FMA:87205: biological entity
FMA:85620: biological entity
FMA:85972: named thing # formerly relationship type
FMA:86003: anatomical entity
FOODON:00002403: biological entity
FOODON:00002451: biological process
GO:0005575: cellular component
GO:0008150: biological process
GO:0003674: molecular activity
HP:0031797: phenotypic feature
HP:0012823: phenotypic feature
HP:0032223: phenotypic feature
HP:0040279: named thing # formerly quantity value
HP:0000005: phenotypic feature
HP:0000118: phenotypic feature
HP:0032443: information content entity
MAXO:0000058: treatment
MEDDRA:10005329: disease
MEDDRA:10007541: disease
MEDDRA:10010331: disease
MEDDRA:10013993: disease
MEDDRA:10014698: disease
MEDDRA:10015919: disease
MEDDRA:10017947: disease
MEDDRA:10018065: disease
MEDDRA:10019805: disease
MEDDRA:10021428: disease
MEDDRA:10021881: disease
MEDDRA:10022117: phenomenon
MEDDRA:10022891: phenomenon
MEDDRA:10027433: disease
MEDDRA:10028395: disease
MEDDRA:10029104: disease
MEDDRA:10029205: disease
MEDDRA:10036585: disease
MEDDRA:10077536: phenomenon
MEDDRA:10037175: disease
MEDDRA:10038359: disease
MEDDRA:10038604: disease
MEDDRA:10038738: disease
MEDDRA:10040785: disease
MEDDRA:10041244: phenomenon
MEDDRA:10042613: procedure
MEDDRA:10047065: disease
MESH:D000715: anatomical entity
MESH:D000760: procedure
MESH:D001520: activity
MESH:D001523: disease
MESH:D003933: procedure
MESH:D004864: device
MESH:D005007: named thing
MESH:D005159: agent
MESH:D006281: agent
MESH:D008919: procedure
MESH:D011579: phenomenon
MESH:D013514: procedure
MESH:D013812: procedure
MESH:D019602: biological entity
MESH:U000002: anatomical entity
MESH:U000004: phenomenon
MESH:U000005: chemical entity # formerly chemical substance
MESH:U000006: disease
MESH:U000012: organism taxon
MESH:U000022: geographic location
MONDO:0000001: disease
MONDO:0001227: disease
MONDO:0020420: disease
MONDO:0021125: phenotypic feature
MONDO:0042489: phenotypic feature
MONDO:0021007: disease
MPATH:0: biological entity
NBO:0000313: activity
NBO:0000243: behavioral feature
NCBITaxon:1: organism taxon
NCIT:C1909: drug
NCIT:C1913: drug
NCIT:C22187: disease
NCIT:C20189: information content entity
NCIT:C2991: disease
NCIT:C20130: gene family
NCIT:C12913: cell
NCIT:C25218: clinical intervention
NCIT:C42645: named thing
NCIT:C16203: activity
NCIT:C12219: anatomical entity
NCIT:C20633: pathway
NCIT:C17828: biological process
NCIT:C12218: treatment
NCIT:C16326: activity
NCIT:C43431: activity
NCIT:C20047: phenotypic feature
NCIT:C7057: phenotypic feature
NCIT:C22188: anatomical entity
NCIT:C16338: material sample
NCIT:C71460: procedure
NCIT:C16612: gene # formerly genomic entity
NCIT:C813: transcript
NCIT:C111298: transcript
NCIT:C17021: protein
NCIT:C28566: protein
NCIT:C21176: molecular entity
NCIT:C26549: noncoding RNA product
NCIT:C28454: transcript
NCIT:C14250: organism taxon
NCIT:C3910: phenotypic feature
NCIT:C48187: material sample
NCIT:C20181: named thing
NCIT:C2991: disease
NCIT:C13379: protein domain
NCIT:C16956: pathological process
NCIT:C19151: pathological process
NCIT:C20130: protein family
NCIT:C26004: protein family
OBI:0000427: protein
OBI:1110122: pathological process
OGMS:0000060: physiological process
OGMS:0000087: individual organism
orphanet:410298: gene
orphanet:410299: noncoding RNA product
orphanet:410297: nucleic acid entity # formerly genomic entity, definition is "Chromosomal region associated with a hereditary disorder but without any precision on the possible associated gene."
orphanet:C023: life stage
orphanet:C001: disease
orphanet:409967: named thing # formerly frequency value
orphanet:C004: named thing # formerly frequency value
orphanet:409973: named thing # formerly frequency value
orphanet:C005: phenotypic feature
owl:Thing: named thing
PATO:0000001: named thing # formerly phenotypic quality
PR:000000001: protein
SIO:001379: protein domain
SIO:001380: protein family
SO:0001217: gene
SNOMED:48176007: activity
SNOMED:64572001: disease
SNOMED:71388002: clinical intervention
SNOMED:78621006: phenomenon
SNOMED:91723000: anatomical entity
SNOMED:105590001: chemical entity # formerly chemical substance
SNOMED:123037004: anatomical entity
SNOMED:123038009: material sample
SNOMED:125676002: individual organism
SNOMED:138875005: named thing
SNOMED:243796009: phenomenon
SNOMED:246061005: information content entity
SNOMED:254291000: named thing # formerly clinical modifier
SNOMED:260787004: physical entity
SNOMED:272379006: phenomenon
SNOMED:308916002: geographic location
SNOMED:362981000: named thing # formerly quantity value
SNOMED:363787002: physical entity
SNOMED:370115009: named thing
SNOMED:373873005: drug
SNOMED:404684003: phenotypic feature
SNOMED:410607006: organism taxon
SNOMED:410942007: drug
SNOMED:419891008: information content entity
SNOMED:900000000000441003: information content entity
SO:0000704: gene # formerly genomic entity
STY:T001: individual organism
STY:T002: organism taxon # formerly individual organism
STY:T004: organism taxon # formerly individual organism
STY:T005: organism taxon # formerly individual organism
STY:T007: organism taxon # formerly individual organism
STY:T008: organism taxon # formerly individual organism
STY:T010: organism taxon # formerly individual organism
STY:T011: organism taxon # formerly individual organism
STY:T012: organism taxon # formerly individual organism
STY:T013: organism taxon # formerly individual organism
STY:T014: organism taxon # formerly individual organism
STY:T015: organism taxon # formerly individual organism
STY:T016: organism taxon # formerly individual organism
STY:T017: anatomical entity
STY:T018: gross anatomical structure
STY:T019: disease
STY:T020: disease
STY:T021: gross anatomical structure
STY:T022: anatomical entity
STY:T023: gross anatomical structure
STY:T024: gross anatomical structure
STY:T025: cell
STY:T026: cellular component
STY:T028: biological entity
STY:T029: anatomical entity
STY:T030: anatomical entity
STY:T031: anatomical entity
STY:T032: named thing # formerly organism attribute
STY:T033: disease or phenotypic feature
STY:T034: phenomenon
STY:T037: pathological process
STY:T038: phenomenon
STY:T039: physiological process
STY:T040: physiological process
STY:T041: behavior
STY:T042: physiological process
STY:T043: physiological process
STY:T044: molecular activity
STY:T045: physiological process
STY:T046: pathological process
STY:T047: disease
STY:T048: disease
STY:T049: disease
STY:T050: biological entity
STY:T051: event # formerly activity
STY:T052: activity
STY:T053: behavior
STY:T054: behavior
STY:T055: behavior
STY:T056: activity
STY:T057: activity
STY:T058: activity
STY:T059: procedure
STY:T060: procedure
STY:T061: procedure
STY:T062: activity
STY:T063: procedure
STY:T064: activity
STY:T065: activity
STY:T066: activity
STY:T067: phenomenon
STY:T068: phenomenon
STY:T069: phenomenon
STY:T070: phenomenon
STY:T071: named thing
STY:T072: physical entity
STY:T073: physical entity
STY:T074: device
STY:T075: device
STY:T077: information content entity
STY:T078: information content entity
STY:T079: information content entity
STY:T080: information content entity
STY:T081: information content entity
STY:T082: information content entity
STY:T083: geographic location
STY:T085: biological entity
STY:T086: nucleic acid entity
STY:T087: polypeptide
STY:T088: biological entity
STY:T089: information content entity
STY:T090: individual organism
STY:T091: named thing
STY:T092: agent
STY:T093: agent
STY:T094: agent
STY:T095: agent
STY:T096: agent
STY:T097: cohort
STY:T098: population of individual organisms
STY:T099: cohort
STY:T100: cohort
STY:T101: cohort
STY:T102: information content entity
STY:T103: chemical entity # formerly chemical substance
STY:T104: chemical entity # formerly chemical substance
STY:T109: chemical entity
STY:T114: nucleic acid entity
STY:T116: polypeptide
STY:T120: chemical entity # formerly chemical substance
STY:T121: drug
STY:T122: device
STY:T123: chemical entity # formerly chemical substance
STY:T125: chemical entity # formerly chemical substance
STY:T126: protein
STY:T127: small molecule
STY:T129: biological entity # formerly chemical substance
STY:T130: chemical entity
STY:T131: chemical entity # formerly chemical substance
STY:T167: chemical entity # formerly chemical substance
STY:T168: food
STY:T169: information content entity
STY:T170: publication
STY:T171: information content entity
STY:T184: phenotypic feature
STY:T185: information content entity
STY:T190: disease
STY:T191: disease
STY:T192: protein
STY:T194: organism taxon # formerly individual organism
STY:T195: drug
STY:T196: small molecule
STY:T197: chemical entity
STY:T200: drug
STY:T201: named thing # formerly clinical attribute
STY:T203: device
STY:T204: organism taxon # formerly individual organism
TRANS:0000000: named thing # formerly exposure event
UBERON:0001062: anatomical entity
UBERON:0000105: life stage
UMLS:C1514562: protein domain # SAR: shouldn't the built-in UMLS semantic types take care of this?
UPHENO:0001001: phenotypic feature
WIKIDATA:Q28845870: biological entity
WIKIDATA:Q12136: disease
WIKIDATA:Q16521: organism taxon
WIKIDATA:Q7239: organismal entity
WIKIDATA:Q417841: protein family
WIKIDATA:Q2278983: protein family