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curie_map.yaml
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153 lines (140 loc) · 7.87 KB
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# NO EMPTY
'': 'file:///ERROR/EMPTY/PREFIX/BANNED/'
# rdf and friends
'rdf': 'http://www.w3.org/1999/02/22-rdf-syntax-ns#'
'rdfs': 'http://www.w3.org/2000/01/rdf-schema#'
'owl': 'http://www.w3.org/2002/07/owl#'
'skos': 'http://www.w3.org/2004/02/skos/core#'
'foaf': 'http://xmlns.com/foaf/0.1/'
'prov': 'http://www.w3.org/ns/prov#'
'dc': 'http://purl.org/dc/elements/1.1/'
'dcterms': 'http://purl.org/dc/terms/'
'dctypes': 'http://purl.org/dc/dcmitype/' # FIXME there is no agreement on qnames
# base
'NIFSTD': 'http://uri.neuinfo.org/nif/nifstd/'
# NIFSTD namespaces
'BIRNLEX': 'http://uri.neuinfo.org/nif/nifstd/birnlex_'
'NIFEXT': 'http://uri.neuinfo.org/nif/nifstd/nifext_'
'NIFRID': 'http://uri.neuinfo.org/nif/nifstd/readable/'
'NLX': 'http://uri.neuinfo.org/nif/nifstd/nlx_'
'NLXANAT': 'http://uri.neuinfo.org/nif/nifstd/nlx_anat_'
'NLXBR': 'http://uri.neuinfo.org/nif/nifstd/nlx_br_'
'NLXCELL': 'http://uri.neuinfo.org/nif/nifstd/nlx_cell_'
'NLXCHEM': 'http://uri.neuinfo.org/nif/nifstd/nlx_chem_'
'NLXDYS': 'http://uri.neuinfo.org/nif/nifstd/nlx_dys_'
'NLXFUNC': 'http://uri.neuinfo.org/nif/nifstd/nlx_func_'
'NLXINV': 'http://uri.neuinfo.org/nif/nifstd/nlx_inv_'
'NLXMOL': 'http://uri.neuinfo.org/nif/nifstd/nlx_mol_'
'NLXNEURNT': 'http://uri.neuinfo.org/nif/nifstd/nlx_neuron_nt_'
'NLXOEN': 'http://uri.neuinfo.org/nif/nifstd/oen_'
'NLXORG': 'http://uri.neuinfo.org/nif/nifstd/nlx_organ_'
'NLXQUAL': 'http://uri.neuinfo.org/nif/nifstd/nlx_qual_'
'NLXRES': 'http://uri.neuinfo.org/nif/nifstd/nlx_res_'
'NLXSUB': 'http://uri.neuinfo.org/nif/nifstd/nlx_subcell_'
'NLXUBO': 'http://uri.neuinfo.org/nif/nifstd/nlx_ubo_'
'NLXUNCL': 'http://uri.neuinfo.org/nif/nifstd/nlx_uncl_'
'SAO': 'http://uri.neuinfo.org/nif/nifstd/sao'
# interlex
'ILX': 'http://uri.interlex.org/base/ilx_'
'ilx': 'http://uri.interlex.org/' # NOTE no /base/
'ilxr': 'http://uri.interlex.org/base/readable/'
'TEMP': 'http://uri.interlex.org/temp/uris/'
'ILXREPLACE': 'http://ILXREPLACE.org/'
# interlex user/org namespaces
'DICOM': 'http://uri.interlex.org/dicom/uris/terms/'
'PAR': 'http://uri.interlex.org/fakeobo/uris/obo/PAR_'
'PAXRAT': 'http://uri.interlex.org/paxinos/uris/rat/labels/'
'PAXMUS': 'http://uri.interlex.org/paxinos/uris/mouse/labels/'
'NDA.CDE': 'http://uri.interlex.org/NDA/uris/datadictionary/elements/'
'ilxtr': 'http://uri.interlex.org/tgbugs/uris/readable/'
# alternate ids
'GBIF': 'http://www.gbif.org/species/'
'ITISTSN': 'http://www.itis.gov/servlet/SingleRpt/SingleRpt?search_topic=TSN&search_value='
'MESH': 'https://meshb.nlm.nih.gov/record/ui?ui='
'RadLex': 'http://www.radlex.org/RID/' # matches uberon
'SBO': 'http://www.ebi.ac.uk/sbo/main/SBO:' # SBO is a fakeobo
# scicrunch registry
'SCR': 'http://scicrunch.org/resolver/SCR_'
# ontologies
'obo': 'http://purl.obolibrary.org/obo/'
'HP': 'http://purl.obolibrary.org/obo/HP_'
'RO': 'http://purl.obolibrary.org/obo/RO_'
'OBI': 'http://purl.obolibrary.org/obo/OBI_'
'oboInOwl': 'http://www.geneontology.org/formats/oboInOwl#'
'IAO': 'http://purl.obolibrary.org/obo/IAO_'
'SO': 'http://purl.obolibrary.org/obo/SO_'
'BFO': 'http://purl.obolibrary.org/obo/BFO_'
'DOID': 'http://purl.obolibrary.org/obo/DOID_'
'MONDO': 'http://purl.obolibrary.org/obo/MONDO_'
'PATO': 'http://purl.obolibrary.org/obo/PATO_'
'PR': 'http://purl.obolibrary.org/obo/PR_'
'PW': 'http://purl.obolibrary.org/obo/PW_'
'CL': 'http://purl.obolibrary.org/obo/CL_'
'MA': 'http://purl.obolibrary.org/obo/MA_'
'MP': 'http://purl.obolibrary.org/obo/MP_'
'CLO': 'http://purl.obolibrary.org/obo/CLO_'
'GO': 'http://purl.obolibrary.org/obo/GO_'
'SIO': 'http://semanticscience.org/resource/SIO_'
'EFO': 'http://www.ebi.ac.uk/efo/EFO_'
'SWO': 'http://www.ebi.ac.uk/efo/swo/SWO_'
'SWOL': 'http://www.ebi.ac.uk/swo/license/SWO_'
'UBERON': 'http://purl.obolibrary.org/obo/UBERON_'
'ERO': 'http://purl.obolibrary.org/obo/ERO_'
'NCBIGene': 'http://www.ncbi.nlm.nih.gov/gene/'
'NCBITaxon': 'http://purl.obolibrary.org/obo/NCBITaxon_'
'UO': 'http://purl.obolibrary.org/obo/UO_'
'CHEBI': 'http://purl.obolibrary.org/obo/CHEBI_'
'chebi': 'http://purl.obolibrary.org/obo/chebi/'
'FMA': 'http://purl.org/sig/ont/fma/fma'
'fma': 'http://purl.org/sig/ont/fma/'
'HBA': 'http://api.brain-map.org:80/api/v2/data/Structure/' # FIXME hack :/
'MBA': 'http://api.brain-map.org/api/v2/data/Structure/'
#'NEMOANN': 'http://purl.bioontology.org/NEMO/ontology/NEMO_annotation_properties.owl'
#'NEMO': 'http://purl.bioontology.org/NEMO/ontology/NEMO.owl#NEMO_'
'BFO1': 'http://www.ifomis.org/bfo/1.1#'
'BFO1SNAP': 'http://www.ifomis.org/bfo/1.1/snap#'
'BFO1SPAN': 'http://www.ifomis.org/bfo/1.1/span#'
'CAO': 'http://www.cognitiveatlas.org/ontology/cogat.owl#CAO_'
'COGAT': 'http://www.cognitiveatlas.org/ontology/cogat.owl#'
'COGPO': 'http://www.cogpo.org/ontologies/COGPO_' # doesn't resolve
'COGPO1': 'http://www.cogpo.org/ontologies/CogPOver1.owl#COGPO_'
'COGPO10': 'http://www.cogpo.org/ontologies/CogPOver2010.owl#COGPO_'
'TRANS': 'http://purl.obolibrary.org/obo/TRANS_'
'SYMP': 'http://purl.obolibrary.org/obo/SYMP_'
# NIF Import closure
'BIRNANN': 'http://ontology.neuinfo.org/NIF/Backend/BIRNLex_annotation_properties.owl#'
'BIRNOBI': 'http://ontology.neuinfo.org/NIF/Backend/BIRNLex-OBI-proxy.owl#'
'BIRNOBO': 'http://ontology.neuinfo.org/NIF/Backend/BIRNLex-OBO-UBO.owl#'
#'NIFBE': 'http://ontology.neuinfo.org/NIF/Backend/nif_backend.owl#'
'NIFQUAL': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Quality.owl#'
'OBOANN': 'http://ontology.neuinfo.org/NIF/Backend/OBO_annotation_properties.owl#'
'NIFANN': 'http://ontology.neuinfo.org/NIF/NIF-Annotation-Standard.owl#'
'NIFCELL': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Cell.owl#'
'NIFCHEM': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Chemical.owl#'
'NIFGA': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-GrossAnatomy.owl#'
'NIFMOL': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Molecule.owl#'
'NIFORG': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Organism.owl#'
'NIFSUB': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Subcellular.owl#'
'NIFUNCL': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Unclassified.owl#'
'SAOCORE': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/SAO-CORE_properties.owl#'
'NIFGG': 'http://ontology.neuinfo.org/NIF/DigitalEntities/NIF-Government-Granting-Agency.owl#'
'NIFINV': 'http://ontology.neuinfo.org/NIF/DigitalEntities/NIF-Investigation.owl#'
'NIFRES': 'http://ontology.neuinfo.org/NIF/DigitalEntities/NIF-Resource.owl#'
'NIFSCID': 'http://ontology.neuinfo.org/NIF/DigitalEntities/NIF-Scientific-Discipline.owl#'
'NIFDYS': 'http://ontology.neuinfo.org/NIF/Dysfunction/NIF-Dysfunction.owl#'
'NIFFUN': 'http://ontology.neuinfo.org/NIF/Function/NIF-Function.owl#'
# Inferred or Slim
'NIFMOLINF': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Molecule-Role-Inferred.owl#'
'NIFNCBISLIM': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-NCBITaxonomy-Slim.owl#'
# Bridge
#'QUALBB': 'http://ontology.neuinfo.org/NIF/Backend/quality_bfo_bridge.owl#'
#'NIFERO': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Eagle-I-Bridge.owl#'
#'NIFGOCC': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-GO-CC-Bridge.owl#'
'NIFMOLROLE': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Molecule-Role-Bridge#' #AAAAAAA
'NIFNCBI': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-NCBITax-Bridge.owl#'
'NIFNEURMC': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF_Neuron_MolecularConstituent_Bridge.owl#'
'NIFNEURBR': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Neuron-BrainRegion-Bridge.owl#'
'NIFNEURBR2': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Neuron-Brain-Bridge.owl#' #AAAAAAAA
'NIFNEURCIR': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Neuron-Circuit-Role-Bridge.owl#'
'NIFNEURMOR': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Neuron-Morphology-Bridge.owl#'
'NIFNEURNT': 'http://ontology.neuinfo.org/NIF/BiomaterialEntities/NIF-Neuron-NT-Bridge.owl#'