diff --git a/registry/monarch_context.jsonld b/registry/monarch_context.jsonld index cc4ff62..f443705 100644 --- a/registry/monarch_context.jsonld +++ b/registry/monarch_context.jsonld @@ -25,7 +25,6 @@ "CoriellCollection": "https://catalog.coriell.org/1/", "CoriellFamily": "https://catalog.coriell.org/0/Sections/BrowseCatalog/FamilyTypeSubDetail.aspx?fam=", "CoriellIndividual": "https://catalog.coriell.org/Search?q=", - "DATA": "http://edamontology.org/data_", "DC_CL": "http://purl.obolibrary.org/obo/DC_CL", "DECIPHER": "http://purl.obolibrary.org/obo/DECIPHER_", "DOI": "http://dx.doi.org/", @@ -33,7 +32,8 @@ "DrugBank": "http://www.drugbank.ca/drugs/", "EC": "http://www.enzyme-database.org/query.php?ec=", "ECO": "http://purl.obolibrary.org/obo/ECO_", - "EFO": "http://purl.obolibrary.org/obo/EFO_", + "EDAM-DATA": "http://edamontology.org/data_", + "EFO": "http://www.ebi.ac.uk/efo/EFO_", "EMAPA": "http://purl.obolibrary.org/obo/EMAPA_", "EMMA": "https://www.infrafrontier.eu/search?keyword=EM:", "ENSEMBL": "http://ensembl.org/id/", @@ -51,6 +51,7 @@ "GO": "http://purl.obolibrary.org/obo/GO_", "GO_REF": "http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:", "GenBank": "http://www.ncbi.nlm.nih.gov/nuccore/", + "Genatlas": "http://genatlas.medecine.univ-paris5.fr/fiche.php?symbol=", "GeneReviews": "http://www.ncbi.nlm.nih.gov/books/", "HGMD": "http://www.hgmd.cf.ac.uk/ac/gene.php?gene=", "HGNC": "http://www.genenames.org/cgi-bin/gene_symbol_report?hgnc_id=", @@ -67,6 +68,7 @@ "ISBN": "https://monarchinitiative.org/ISBN_", "ISBN-10": "https://monarchinitiative.org/ISBN10_", "ISBN-13": "https://monarchinitiative.org/ISBN13_", + "IUPHAR": "http://www.guidetopharmacology.org/GRAC/ObjectDisplayForward?objectId=", "J": "http://www.informatics.jax.org/reference/J:", "JAX": "http://jaxmice.jax.org/strain/", "KEGG-ds": "http://purl.obolibrary.org/KEGG-ds_", @@ -88,11 +90,11 @@ "MPD-strain": "http://phenome.jax.org/db/q?rtn=strains/details&strainid=", "MUGEN": "http://bioit.fleming.gr/mugen/Controller?workflow=ViewModel&expand_all=true&name_begins=model.block&eid=", "MedGen": "http://www.ncbi.nlm.nih.gov/medgen/", - "MonarchArchive": "https://archive.monarchinitiative.org/201806/", + "MonarchArchive": "https://archive.monarchinitiative.org/201901/", "MonarchData": "https://data.monarchinitiative.org/ttl/", "NBO": "http://purl.obolibrary.org/obo/NBO_", "NCBIAssembly": "http://www.ncbi.nlm.nih.gov/assembly/", - "NCBIGene": "http://www.ncbi.nlm.nih.gov/gene/", + "NCBIGene": "https://www.ncbi.nlm.nih.gov/gene/", "NCBIGenome": "http://www.ncbi.nlm.nih.gov/genome/", "NCBIProtein": "http://www.ncbi.nlm.nih.gov/protein/", "NCBITaxon": "http://purl.obolibrary.org/obo/NCBITaxon_", @@ -103,11 +105,10 @@ "OBAN": "http://purl.org/oban/", "OBI": "http://purl.obolibrary.org/obo/OBI_", "OBO": "http://purl.obolibrary.org/obo/", - "OIO": "http://www.geneontology.org/formats/oboInOwl#", "OMIA": "http://purl.obolibrary.org/obo/OMIA_", "OMIA-breed": "https://monarchinitiative.org/model/OMIA-breed:", - "OMIM": "http://purl.obolibrary.org/obo/OMIM_", - "Orphanet": "http://www.orpha.net/ORDO/Orphanet_", + "OMIM": "http://omim.org/entry/", + "ORPHA": "http://www.orpha.net/ORDO/Orphanet_", "PAINT_REF": "http://www.geneontology.org/gene-associations/submission/paint/", "PANTHER": "http://www.pantherdb.org/panther/family.do?clsAccession=", "PATO": "http://purl.obolibrary.org/obo/PATO_", @@ -138,11 +139,13 @@ "TrEMBL": "http://purl.uniprot.org/uniprot/", "UBERON": "http://purl.obolibrary.org/obo/UBERON_", "UCSC": "ftp://hgdownload.cse.ucsc.edu/goldenPath/", + "UCSCBuild": "http://genome.ucsc.edu/cgi-bin/hgGateway?db=", "UMLS": "http://linkedlifedata.com/resource/umls/id/", "UNII": "http://fdasis.nlm.nih.gov/srs/unii/", "UO": "http://purl.obolibrary.org/obo/UO_", "UPHENO": "http://purl.obolibrary.org/obo/UPHENO_", "UniProtKB": "http://identifiers.org/uniprot/", + "VGNC": "https://vertebrate.genenames.org/data/gene-symbol-report/#!/vgnc_id/", "VIVO": "http://vivoweb.org/ontology/core#", "VT": "http://purl.obolibrary.org/obo/VT_", "WBPhenotype": "http://purl.obolibrary.org/obo/WBPhenotype_", @@ -158,7 +161,7 @@ "ZFS": "http://purl.obolibrary.org/obo/ZFS_", "ZP": "http://purl.obolibrary.org/obo/ZP_", "catfishQTL": "https://www.animalgenome.org/cgi-bin/QTLdb/IP/qdetails?QTL_ID=", - "cattleQTL": "https://www.animalgenome.org/cgi-bin/QTLdb/BT/qdetails?QTL_D=", + "cattleQTL": "https://www.animalgenome.org/cgi-bin/QTLdb/BT/qdetails?QTL_ID=", "chickenQTL": "https://www.animalgenome.org/cgi-bin/QTLdb/GG/qdetails?QTL_ID=", "dbSNP": "http://www.ncbi.nlm.nih.gov/projects/SNP/snp_ref.cgi?rs=", "dbSNPIndividual": "http://www.ncbi.nlm.nih.gov/SNP/snp_ind.cgi?ind_id=", @@ -171,6 +174,8 @@ "faldo": "http://biohackathon.org/resource/faldo#", "foaf": "http://xmlns.com/foaf/0.1/", "horseQTL": "https://www.animalgenome.org/cgi-bin/QTLdb/EC/qdetails?QTL_ID=", + "miRBase": "http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=", + "oboInOwl": "http://www.geneontology.org/formats/oboInOwl#", "owl": "http://www.w3.org/2002/07/owl#", "pav": "http://purl.org/pav/", "pigQTL": "https://www.animalgenome.org/cgi-bin/QTLdb/SS/qdetails?QTL_ID=",