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mondo.sssom.config.yml
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mondo.sssom.config.yml
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curie_map:
MONDO: http://purl.obolibrary.org/obo/MONDO_
UMLS: http://linkedlifedata.com/resource/umls/id/
NCIT: http://purl.obolibrary.org/obo/NCIT_
DOID: http://purl.obolibrary.org/obo/DOID_
EFO: http://www.ebi.ac.uk/efo/EFO_
HGNC: "http://identifiers.org/hgnc/"
# HGNC__2: "https://identifiers.org/hgnc:"
# HGNC__3: "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:"
# HGNC_symbol: https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/
HP: http://purl.obolibrary.org/obo/HP_
# SCTID: http://identifiers.org/snomedct/
# SCTID__2: http://snomed.info/id/
OMIM: https://omim.org/entry/
# OMIM__2: http://identifiers.org/omim/
# OMIM__3: http://purl.obolibrary.org/obo/OMIM_
# OMIM__4: http://omim.org/entry/
mesh: http://identifiers.org/mesh/
Orphanet: http://www.orpha.net/ORDO/Orphanet_
# Orphanet__2: https://www.orpha.net/ORDO/Orphanet_
# Orphanet__3: http://purl.obolibrary.org/obo/Orphanet_
oboInOwl: http://www.geneontology.org/formats/oboInOwl#
NCBITaxon: http://purl.obolibrary.org/obo/NCBITaxon_
skos: http://www.w3.org/2004/02/skos/core#
ICD10CM: http://purl.bioontology.org/ontology/ICD10CM/
# ICD10CM__2: https://icd.codes/icd10cm/
# ICD10WHO: https://icd.who.int/browse10/2019/en#/
# ICD10WHO__2: http://apps.who.int/classifications/icd10/browse/2010/en#/
icd11.foundation: http://purl.obolibrary.org/obo/mondo/sources/icd11foundation/
OMIMPS: https://omim.org/phenotypicSeries/PS
MEDGEN: http://identifiers.org/medgen/
MedDRA: http://identifiers.org/meddra/
rdfs: http://www.w3.org/2000/01/rdf-schema#
owl: http://www.w3.org/2002/07/owl#
semapv: https://w3id.org/semapv/vocab/
rdf: http://www.w3.org/1999/02/22-rdf-syntax-ns#
sssom: https://w3id.org/sssom/
# oio: http://www.geneontology.org/formats/oboInOwl#
GTR: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/GTR/"
# NCI: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/NCI/"
NIFSTD: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/NIFSTD/"
PO_GIT: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/PO_GIT/"
CALOHA: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/CALOHA/"
Reactome: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/Reactome/"
MTH: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/MTH/"
IMDRF: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/IMDRF/"
LOINC: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/LOINC/"
MEDDRA: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/MEDDRA/"
# ncithesaurus: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/ncithesaurus/"
COHD: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/COHD/"
ONCOTREE: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/ONCOTREE/"
ICD9: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/ICD9/"
NDFRT: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/NDFRT/"
ICD9CM: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/ICD9CM/"
SUBSET_SIREN: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/SUBSET_SIREN/"
ICDO: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/ICDO/"
Wikidata: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/Wikidata/"
IEDB: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/IEDB/"
PMID: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/PMID/"
KEGG: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/KEGG/"
ICD11: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/ICD11/"
DECIPHER: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/DECIPHER/"
CSP: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/CSP/"
Wikipedia: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/Wikipedia/"
Fyler: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/Fyler/"
EPCC: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/EPCC/"
# UMLS_CUI: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/UMLS_CUI/"
KUPO: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/KUPO/"
OMOP: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/OMOP/"
# ICD10: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/ICD10/"
ICD10EXP: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/ICD10EXP/"
DERMO: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/DERMO/"
GARD: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/GARD/"
# SNOMEDCT_US: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/SNOMEDCT_US/"
# MSH: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/MSH/"
GC_ID: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/GC_ID/"
# SNOMEDCT_2010_1_31: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/SNOMEDCT_2010_1_31/"
OMIA: "http://purl.obolibrary.org/obo/mondo/mappings/unknown_prefix/OMIA/"
subject_prefixes:
- MONDO
- OMIM
- Orphanet
- EFO
- ICD10CM
- ICD10WHO
- OMIMPS
- NCIT
- DOID
- icd11.foundation
relations:
- oboInOwl:hasDbXref
- skos:exactMatch
- skos:broadMatch
- skos:narrowMatch
- skos:closeMatch
- skos:relatedMatch
global_metadata:
subject_source: http://purl.obolibrary.org/obo/mondo.owl
license: "https://creativecommons.org/publicdomain/zero/1.0/"
mapping_date: "2017-09-20"
mapping_set_id: "GLOBAL" # Apparently this is the one that matters.
source_metadata:
- from: MONDO
to: OMIM
metadata:
object_source: https://www.omim.org/
object_source_version: http://www.orphadata.org/data/ORDO/ordo_orphanet_3.1.owl
mapping_date: "2022-02-11"
comment: "The latest OMIM is integrated with every Mondo release."
- from: MONDO
to: UMLS
metadata:
object_source: https://uts.nlm.nih.gov/uts/
- from: MONDO
to: EFO
metadata:
object_source: http://www.ebi.ac.uk/efo/efo.owl
- from: MONDO
to: ICD10CM
metadata:
object_source: https://www.icd10data.com/
mapping_date: "2017-09-20"
- from: MONDO
to: Orphanet
metadata:
object_source: https://www.orpha.net/
object_source_version: http://www.orphadata.org/data/ORDO/ordo_orphanet_3.1.owl
mapping_date: "2021-07-06"
comment: "The latest Orphanet is integrated with every Mondo release."
- from: MONDO
to: NCIT
metadata:
object_source: http://purl.obolibrary.org/obo/ncit.owl
object_source_version: http://purl.obolibrary.org/obo/ncit/releases/2018-06-14/ncit.owl
mapping_date: "2018-06-14"
- from: MONDO
to: DOID
metadata:
object_source: http://purl.obolibrary.org/obo/doid.owl
object_source_version: http://purl.obolibrary.org/obo/doid/releases/2018-07-05/doid.owl
mapping_date: "2018-07-05"
- from: MONDO
to: icd11.foundation
metadata:
object_source: http://purl.obolibrary.org/obo/mondo/sources/icd11foundation.owl