diff --git a/.travis.yml b/.travis.yml
index 5a49db6..b25eef5 100644
--- a/.travis.yml
+++ b/.travis.yml
@@ -1,6 +1,6 @@
 language: python
 python:
-  - "3.4"
+  - "3.7"
 
 # command to install dependencies
 install:
diff --git a/Makefile b/Makefile
index 100fb8d..8d5a30b 100644
--- a/Makefile
+++ b/Makefile
@@ -28,8 +28,8 @@ registry/obo_context.jsonld: trigger
 registry/minerva_context.jsonld:  trigger
 	wget --no-check-certificate https://raw.githubusercontent.com/geneontology/minerva/master/minerva-core/src/main/resources/amigo_context_manual.jsonld -O $@ && touch $@
 
-registry/go_context.jsonld: registry/go-db-xrefs.json 
-	./bin/go-xrefs-to-context.py $< > $@.tmp && mv $@.tmp $@
+#registry/go_context.jsonld: registry/go-db-xrefs.json 
+#	./bin/go-xrefs-to-context.py $< > $@.tmp && mv $@.tmp $@
 
 ## Monarch
 registry/monarch_curie_map.yaml:
@@ -45,13 +45,13 @@ registry/pr_context.jsonld:
 ## IDENTIFIERS.ORG
 
 ## Step1: Get miriam
-registry/miriam.ttl:  trigger
-	wget --no-check-certificate http://www.ebi.ac.uk/miriam/main/export/registry.ttl -O $@ && touch $@
+#registry/miriam.ttl:  trigger
+#	wget --no-check-certificate http://www.ebi.ac.uk/miriam/main/export/registry.ttl -O $@ && touch $@
 
 ##
 ## Everything from MIRIAM registry
-registry/idot_context.jsonld: registry/miriam.ttl
-	 ./bin/miriam2jsonld.pl $< > $@
+#registry/idot_context.jsonld: registry/miriam.ttl
+#	 ./bin/miriam2jsonld.pl $< > $@
 
 ## NON-REDUNDANT IDOT
 ##
diff --git a/registry/commons_context.jsonld b/registry/commons_context.jsonld
index 7c60f16..faf6b1d 100644
--- a/registry/commons_context.jsonld
+++ b/registry/commons_context.jsonld
@@ -1,6 +1,6 @@
 {
     "@context": {
-        "dc": "http://purl.org/dc/elements/1.1/",
+        "dc": "http://purl.org/dc/terms/",
         "dcat": "http://www.w3.org/ns/dcat#",
         "dcterms": "http://purl.org/dc/terms/",
         "faldo": "http://biohackathon.org/resource/faldo#",
@@ -106,7 +106,7 @@
         "GENECARDS": "http://identifiers.org/genecards/",
         "MICROSCOPE": "http://identifiers.org/microscope/",
         "SWISSREGULON": "http://identifiers.org/swissregulon/",
-        "EFO": "http://purl.obolibrary.org/obo/EFO_",
+        "EFO": "http://www.ebi.ac.uk/efo/EFO_",
         "CYGD": "http://identifiers.org/cygd/",
         "METLIN": "http://identifiers.org/metlin/",
         "UMBBD.ENZYME": "http://identifiers.org/umbbd.enzyme/",
@@ -128,7 +128,7 @@
         "DATF": "http://identifiers.org/datf/",
         "DBD": "http://identifiers.org/dbd/",
         "TREEFAM": "http://identifiers.org/treefam/",
-        "MESH": "http://purl.obolibrary.org/obo/MESH_",
+        "MESH": "http://id.nlm.nih.gov/mesh/",
         "ARDB": "http://identifiers.org/ardb/",
         "MIRIAM.COLLECTION": "http://identifiers.org/miriam.collection/",
         "LGIC": "http://identifiers.org/lgic/",
@@ -183,7 +183,7 @@
         "VBASE2": "http://identifiers.org/vbase2/",
         "BIND": "http://identifiers.org/bind/",
         "FBOL": "http://identifiers.org/fbol/",
-        "HGNC": "http://www.genenames.org/cgi-bin/gene_symbol_report?hgnc_id=",
+        "HGNC": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:",
         "FAIRSHARING": "http://identifiers.org/fairsharing/",
         "MIRBASE.MATURE": "http://identifiers.org/mirbase.mature/",
         "DBSNP": "http://identifiers.org/dbsnp/",
@@ -469,7 +469,7 @@
         "NONCODEV4.GENE": "http://identifiers.org/noncodev4.gene/",
         "WIKIGENES": "http://identifiers.org/wikigenes/",
         "GWASCENTRAL.STUDY": "http://identifiers.org/gwascentral.study/",
-        "NCBIGENE": "http://identifiers.org/ncbigene/",
+        "NCBIGene": "https://www.ncbi.nlm.nih.gov/gene/",
         "GRID": "http://identifiers.org/grid/",
         "SIDER.EFFECT": "http://identifiers.org/sider.effect/",
         "EXAC.VARIANT": "http://identifiers.org/exac.variant/",
@@ -633,7 +633,7 @@
         "MEROPS.INHIBITOR": "http://identifiers.org/merops.inhibitor/",
         "GMD.GCMS": "http://identifiers.org/gmd.gcms/",
         "NEUROVAULT.IMAGE": "http://identifiers.org/neurovault.image/",
-        "OMIA": "http://purl.obolibrary.org/obo/OMIA_",
+        "OMIA": "https://omia.org/OMIA",
         "CHEMBANK": "http://identifiers.org/chembank/",
         "BIOCATALOGUE.SERVICE": "http://identifiers.org/biocatalogue.service/",
         "FB": "http://identifiers.org/fb/",
@@ -655,9 +655,13 @@
         "APO": "http://purl.obolibrary.org/obo/APO_",
         "AQTLPub": "https://www.animalgenome.org/cgi-bin/QTLdb/BT/qabstract?PUBMED_ID=",
         "AQTLTrait": "http://identifiers.org/animalqtltrait/",
+        "AspGD": "http://www.aspergillusgenome.org/cgi-bin/locus.pl?dbid=",
+        "AspGD_REF": "http://www.aspergillusgenome.org/cgi-bin/reference/reference.pl?dbid=",
         "BFO": "http://purl.obolibrary.org/obo/BFO_",
+        "BGD": "http://bovinegenome.org/genepages/btau40/genes/",
         "BNODE": "https://monarchinitiative.org/.well-known/genid/",
         "BT": "http://c.biothings.io/#",
+        "CGNC": "http://birdgenenames.org/cgnc/GeneReport?id=",
         "CHEBI": "http://purl.obolibrary.org/obo/CHEBI_",
         "CHR": "http://purl.obolibrary.org/obo/CHR_",
         "CID": "http://pubchem.ncbi.nlm.nih.gov/compound/",
@@ -665,52 +669,64 @@
         "CLO": "http://purl.obolibrary.org/obo/CLO_",
         "CMMR": "http://www.cmmr.ca/order.php?t=m&id=",
         "CMO": "http://purl.obolibrary.org/obo/CMO_",
+        "COHD": "http://purl.obolibrary.org/obo/COHD_",
         "ClinVar": "http://www.ncbi.nlm.nih.gov/clinvar/",
         "ClinVarSubmitters": "http://www.ncbi.nlm.nih.gov/clinvar/submitters/",
         "ClinVarVariant": "http://www.ncbi.nlm.nih.gov/clinvar/variation/",
+        "ComplexPortal": "https://www.ebi.ac.uk/complexportal/complex/",
         "Coriell": "https://catalog.coriell.org/0/Sections/Search/Sample_Detail.aspx?Ref=",
         "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_",
+        "DECIPHER": "https://decipher.sanger.ac.uk/syndrome/",
         "DOID": "http://purl.obolibrary.org/obo/DOID_",
         "DrugBank": "http://www.drugbank.ca/drugs/",
-        "EC": "http://www.enzyme-database.org/query.php?ec=",
+        "EC": "https://www.enzyme-database.org/query.php?ec=",
         "ECO": "http://purl.obolibrary.org/obo/ECO_",
+        "EDAM-DATA": "http://edamontology.org/data_",
         "EMAPA": "http://purl.obolibrary.org/obo/EMAPA_",
         "EMMA": "https://www.infrafrontier.eu/search?keyword=EM:",
         "ENVO": "http://purl.obolibrary.org/obo/ENVO_",
-        "EOM": "http://purl.obolibrary.org/obo/EOM_",
+        "EOM": "https://elementsofmorphology.nih.gov/index.cgi?tid=",
+        "EOM_IMG": "https://elementsofmorphology.nih.gov/images/terms/",
         "ERO": "http://purl.obolibrary.org/obo/ERO_",
         "EcoGene": "http://ecogene.org/gene/",
+        "EnsemblGenome": "http://www.ensemblgenomes.org/id/",
         "FBbt": "http://purl.obolibrary.org/obo/FBbt_",
         "FBcv": "http://purl.obolibrary.org/obo/FBcv_",
         "FBdv": "http://purl.obolibrary.org/obo/FBdv_",
         "FDADrug": "http://www.fda.gov/Drugs/InformationOnDrugs/",
         "FlyBase": "http://flybase.org/reports/",
+        "GARD": "http://purl.obolibrary.org/obo/GARD_",
         "GENO": "http://purl.obolibrary.org/obo/GENO_",
         "GINAS": "http://tripod.nih.gov/ginas/app/substance#",
         "GO": "http://purl.obolibrary.org/obo/GO_",
         "GO_REF": "http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:",
+        "GWAS": "https://www.ebi.ac.uk/gwas/variants/",
         "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/",
         "HP": "http://purl.obolibrary.org/obo/HP_",
         "HPO": "http://human-phenotype-ontology.org/",
         "IAO": "http://purl.obolibrary.org/obo/IAO_",
-        "IMPC": "http://www.mousephenotype.org/data/genes/",
-        "IMPRESS-parameter": "https://www.mousephenotype.org/impress/parameterontologies/",
-        "IMPRESS-procedure": "https://www.mousephenotype.org/impress/procedures/",
-        "IMPRESS-protocol": "https://www.mousephenotype.org/impress/protocol/",
+        "ICD9": "http://purl.obolibrary.org/obo/ICD9_",
+        "IMPC": "https://www.mousephenotype.org/data/genes/",
+        "IMPC-param": "https://www.mousephenotype.org/impress/OntologyInfo?action=list&procID=",
+        "IMPC-pipe": "https://www.mousephenotype.org/impress/PipelineInfo?id=",
+        "IMPC-proc": "https://www.mousephenotype.org/impress/ProcedureInfo?action=list&procID=",
         "ISBN-10": "https://monarchinitiative.org/ISBN10_",
         "ISBN-13": "https://monarchinitiative.org/ISBN13_",
+        "IUPHAR": "http://www.guidetopharmacology.org/GRAC/ObjectDisplayForward?objectId=",
+        "InterPro": "https://www.ebi.ac.uk/interpro/entry/InterPro/",
         "J": "http://www.informatics.jax.org/reference/J:",
         "JAX": "http://jaxmice.jax.org/strain/",
         "KEGG-ds": "http://purl.obolibrary.org/KEGG-ds_",
         "KEGG-hsa": "http://www.kegg.jp/dbget-bin/www_bget?hsa:",
+        "KEGG-img": "http://www.genome.jp/kegg/pathway/map/",
         "KEGG-ko": "http://www.kegg.jp/dbget-bin/www_bget?ko:",
         "KEGG-path": "http://www.kegg.jp/dbget-bin/www_bget?path:",
+        "LIDA": "http://sydney.edu.au/vetscience/lida/dogs/search/disorder/",
         "LPT": "http://purl.obolibrary.org/obo/LPT_",
         "MA": "http://purl.obolibrary.org/obo/MA_",
         "MONARCH": "https://monarchinitiative.org/MONARCH_",
@@ -722,12 +738,13 @@
         "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/",
         "MonarchData": "https://data.monarchinitiative.org/ttl/",
+        "MonarchLogoRepo": "https://github.com/monarch-initiative/monarch-ui/blob/master/public/img/sources/",
         "NBO": "http://purl.obolibrary.org/obo/NBO_",
-        "NCBIAssembly": "http://www.ncbi.nlm.nih.gov/assembly/",
-        "NCBIGene": "http://www.ncbi.nlm.nih.gov/gene/",
-        "NCBIGenome": "http://www.ncbi.nlm.nih.gov/genome/",
+        "NCBIAssembly": "https://www.ncbi.nlm.nih.gov/assembly?term=",
+        "NCBIBSgene": "http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=gene&part=",
+        "NCBIGenome": "https://www.ncbi.nlm.nih.gov/genome/",
         "NCBIProtein": "http://www.ncbi.nlm.nih.gov/protein/",
         "NCBITaxon": "http://purl.obolibrary.org/obo/NCBITaxon_",
         "NCIMR": "https://mouse.ncifcrf.gov/available_details.asp?ID=",
@@ -737,10 +754,10 @@
         "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-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/",
+        "OMIMPS": "http://www.omim.org/phenotypicSeries/",
+        "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_",
@@ -750,12 +767,13 @@
         "PR": "http://purl.obolibrary.org/obo/PR_",
         "PW": "http://purl.obolibrary.org/obo/PW_",
         "PomBase": "https://www.pombase.org/spombe/result/",
-        "RBRC": "http://www2.brc.riken.jp/lab/animal/detail.php?brc_no=RBRC",
+        "RBRC": "http://www2.brc.riken.jp/lab/animal/detail.php?brc_no=",
         "REACT": "http://www.reactome.org/PathwayBrowser/#/",
         "RGDRef": "http://rgd.mcw.edu/rgdweb/report/reference/main.html?id=",
         "RO": "http://purl.obolibrary.org/obo/RO_",
         "RXCUI": "http://purl.bioontology.org/ontology/RXNORM/",
         "RefSeq": "http://www.ncbi.nlm.nih.gov/refseq/?term=",
+        "SCTID": "http://purl.obolibrary.org/obo/SCTID_",
         "SEPIO": "http://purl.obolibrary.org/obo/SEPIO_",
         "SGD_REF": "https://www.yeastgenome.org/reference/",
         "SIO": "http://semanticscience.org/resource/SIO_",
@@ -767,9 +785,11 @@
         "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=",
         "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_",
@@ -779,30 +799,39 @@
         "WormBase": "https://www.wormbase.org/get?name=",
         "XAO": "http://purl.obolibrary.org/obo/XAO_",
         "XCO": "http://purl.obolibrary.org/obo/XCO_",
-        "Xenbase": "http://www.xenbase.org/gene/showgene.do?method=display&geneId=",
+        "XPO": "http://purl.obolibrary.org/obo/XPO_",
+        "Xenbase": "http://identifiers.org/xenbase/",
         "ZFA": "http://purl.obolibrary.org/obo/ZFA_",
         "ZFS": "http://purl.obolibrary.org/obo/ZFS_",
         "ZP": "http://purl.obolibrary.org/obo/ZP_",
+        "biolink": "https://w3id.org/biolink/vocab/",
         "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=",
+        "cito": "http://purl.org/spar/cito/",
         "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=",
         "dbVar": "http://www.ncbi.nlm.nih.gov/dbvar/",
         "dctypes": "http://purl.org/dc/dcmitype/",
         "dictyBase": "http://dictybase.org/gene/",
         "horseQTL": "https://www.animalgenome.org/cgi-bin/QTLdb/EC/qdetails?QTL_ID=",
+        "miRBase": "http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=",
         "pav": "http://purl.org/pav/",
         "pigQTL": "https://www.animalgenome.org/cgi-bin/QTLdb/SS/qdetails?QTL_ID=",
         "rainbow_troutQTL": "https://www.animalgenome.org/cgi-bin/QTLdb/OM/qdetails?QTL_ID=",
+        "schema": "http://schema.org/",
         "sheepQTL": "https://www.animalgenome.org/cgi-bin/QTLdb/OA/qdetails?QTL_ID=",
-        "skos": "https://www.w3.org/TR/skos-reference/#",
+        "skos": "http://www.w3.org/2004/02/skos/core#",
+        "vfb": "http://virtualflybrain.org/reports/",
         "xml": "http://www.w3.org/XML/1998/namespace",
         "AAO": "http://purl.obolibrary.org/obo/AAO_",
         "ADW": "http://purl.obolibrary.org/obo/ADW_",
         "AEO": "http://purl.obolibrary.org/obo/AEO_",
         "AERO": "http://purl.obolibrary.org/obo/AERO_",
         "AGRO": "http://purl.obolibrary.org/obo/AGRO_",
+        "AISM": "http://purl.obolibrary.org/obo/AISM_",
+        "AMPHX": "http://purl.obolibrary.org/obo/AMPHX_",
+        "APOLLO_SV": "http://purl.obolibrary.org/obo/APOLLO_SV_",
         "ARO": "http://purl.obolibrary.org/obo/ARO_",
         "ATO": "http://purl.obolibrary.org/obo/ATO_",
         "BCGO": "http://purl.obolibrary.org/obo/BCGO_",
@@ -813,13 +842,20 @@
         "BTO": "http://purl.obolibrary.org/obo/BTO_",
         "CARO": "http://purl.obolibrary.org/obo/CARO_",
         "CDAO": "http://purl.obolibrary.org/obo/CDAO_",
+        "CDNO": "http://purl.obolibrary.org/obo/CDNO_",
         "CEPH": "http://purl.obolibrary.org/obo/CEPH_",
         "CHEMINF": "http://purl.obolibrary.org/obo/CHEMINF_",
+        "CHIRO": "http://purl.obolibrary.org/obo/CHIRO_",
         "CHMO": "http://purl.obolibrary.org/obo/CHMO_",
+        "CIDO": "http://purl.obolibrary.org/obo/CIDO_",
         "CIO": "http://purl.obolibrary.org/obo/CIO_",
+        "CLAO": "http://purl.obolibrary.org/obo/CLAO_",
+        "CLYH": "http://purl.obolibrary.org/obo/CLYH_",
         "CMF": "http://purl.obolibrary.org/obo/CMF_",
+        "COB": "http://purl.obolibrary.org/obo/COB_",
         "CRO": "http://purl.obolibrary.org/obo/CRO_",
         "CTENO": "http://purl.obolibrary.org/obo/CTENO_",
+        "CTO": "http://purl.obolibrary.org/obo/CTO_",
         "CVDO": "http://purl.obolibrary.org/obo/CVDO_",
         "DDANAT": "http://purl.obolibrary.org/obo/DDANAT_",
         "DDPHENO": "http://purl.obolibrary.org/obo/DDPHENO_",
@@ -827,7 +863,9 @@
         "DINTO": "http://purl.obolibrary.org/obo/DINTO_",
         "DRON": "http://purl.obolibrary.org/obo/DRON_",
         "DUO": "http://purl.obolibrary.org/obo/DUO_",
+        "ECAO": "http://purl.obolibrary.org/obo/ECAO_",
         "ECOCORE": "http://purl.obolibrary.org/obo/ECOCORE_",
+        "ECTO": "http://purl.obolibrary.org/obo/ECTO_",
         "EHDA": "http://purl.obolibrary.org/obo/EHDA_",
         "EHDAA": "http://purl.obolibrary.org/obo/EHDAA_",
         "EHDAA2": "http://purl.obolibrary.org/obo/EHDAA2_",
@@ -836,36 +874,50 @@
         "EPO": "http://purl.obolibrary.org/obo/EPO_",
         "EUPATH": "http://purl.obolibrary.org/obo/EUPATH_",
         "EV": "http://purl.obolibrary.org/obo/EV_",
-        "EXO": "http://purl.obolibrary.org/obo/EXO_",
+        "ExO": "http://purl.obolibrary.org/obo/ExO_",
         "FAO": "http://purl.obolibrary.org/obo/FAO_",
         "FBSP": "http://purl.obolibrary.org/obo/FBSP_",
         "FBbi": "http://purl.obolibrary.org/obo/FBbi_",
+        "FIDEO": "http://purl.obolibrary.org/obo/FIDEO_",
         "FIX": "http://purl.obolibrary.org/obo/FIX_",
         "FLOPO": "http://purl.obolibrary.org/obo/FLOPO_",
         "FLU": "http://purl.obolibrary.org/obo/FLU_",
         "FMA": "http://purl.obolibrary.org/obo/FMA_",
+        "FOBI": "http://purl.obolibrary.org/obo/FOBI_",
         "FOODON": "http://purl.obolibrary.org/obo/FOODON_",
+        "FOVT": "http://purl.obolibrary.org/obo/FOVT_",
         "FYPO": "http://purl.obolibrary.org/obo/FYPO_",
         "GAZ": "http://purl.obolibrary.org/obo/GAZ_",
+        "GECKO": "http://purl.obolibrary.org/obo/GECKO_",
         "GENEPIO": "http://purl.obolibrary.org/obo/GENEPIO_",
         "GEO": "http://purl.obolibrary.org/obo/GEO_",
+        "GNO": "http://purl.obolibrary.org/obo/GNO_",
         "GRO": "http://purl.obolibrary.org/obo/GRO_",
+        "GSSO": "http://purl.obolibrary.org/obo/GSSO_",
         "HABRONATTUS": "http://purl.obolibrary.org/obo/HABRONATTUS_",
+        "HANCESTRO": "http://purl.obolibrary.org/obo/HANCESTRO_",
         "HAO": "http://purl.obolibrary.org/obo/HAO_",
         "HOM": "http://purl.obolibrary.org/obo/HOM_",
-        "HSAPDV": "http://purl.obolibrary.org/obo/HSAPDV_",
+        "HSO": "http://purl.obolibrary.org/obo/HSO_",
+        "HTN": "http://purl.obolibrary.org/obo/HTN_",
+        "HsapDv": "http://purl.obolibrary.org/obo/HsapDv_",
+        "ICEO": "http://purl.obolibrary.org/obo/ICEO_",
         "ICO": "http://purl.obolibrary.org/obo/ICO_",
         "IDO": "http://purl.obolibrary.org/obo/IDO_",
         "IDOMAL": "http://purl.obolibrary.org/obo/IDOMAL_",
         "IEV": "http://purl.obolibrary.org/obo/IEV_",
         "IMR": "http://purl.obolibrary.org/obo/IMR_",
+        "INO": "http://purl.obolibrary.org/obo/INO_",
         "IPR": "http://purl.obolibrary.org/obo/IPR_",
         "KISAO": "http://purl.obolibrary.org/obo/KISAO_",
+        "LABO": "http://purl.obolibrary.org/obo/LABO_",
         "LIPRO": "http://purl.obolibrary.org/obo/LIPRO_",
         "LOGGERHEAD": "http://purl.obolibrary.org/obo/LOGGERHEAD_",
         "MAMO": "http://purl.obolibrary.org/obo/MAMO_",
         "MAO": "http://purl.obolibrary.org/obo/MAO_",
         "MAT": "http://purl.obolibrary.org/obo/MAT_",
+        "MAXO": "http://purl.obolibrary.org/obo/MAXO_",
+        "MCO": "http://purl.obolibrary.org/obo/MCO_",
         "MF": "http://purl.obolibrary.org/obo/MF_",
         "MFMO": "http://purl.obolibrary.org/obo/MFMO_",
         "MFO": "http://purl.obolibrary.org/obo/MFO_",
@@ -877,18 +929,19 @@
         "MIRNAO": "http://purl.obolibrary.org/obo/MIRNAO_",
         "MIRO": "http://purl.obolibrary.org/obo/MIRO_",
         "MMO": "http://purl.obolibrary.org/obo/MMO_",
-        "MMUSDV": "http://purl.obolibrary.org/obo/MMUSDV_",
         "MO": "http://purl.obolibrary.org/obo/MO_",
         "MOD": "http://purl.obolibrary.org/obo/MOD_",
         "MOP": "http://purl.obolibrary.org/obo/MOP_",
         "MPIO": "http://purl.obolibrary.org/obo/MPIO_",
         "MRO": "http://purl.obolibrary.org/obo/MRO_",
         "MS": "http://purl.obolibrary.org/obo/MS_",
+        "MmusDv": "http://purl.obolibrary.org/obo/MmusDv_",
         "NCRO": "http://purl.obolibrary.org/obo/NCRO_",
         "NIF_CELL": "http://purl.obolibrary.org/obo/NIF_CELL_",
         "NIF_DYSFUNCTION": "http://purl.obolibrary.org/obo/NIF_DYSFUNCTION_",
         "NIF_GROSSANATOMY": "http://purl.obolibrary.org/obo/NIF_GROSSANATOMY_",
         "NMR": "http://purl.obolibrary.org/obo/NMR_",
+        "NOMEN": "http://purl.obolibrary.org/obo/NOMEN_",
         "OARCS": "http://purl.obolibrary.org/obo/OARCS_",
         "OBCS": "http://purl.obolibrary.org/obo/OBCS_",
         "OBIB": "http://purl.obolibrary.org/obo/OBIB_",
@@ -899,27 +952,38 @@
         "OGSF": "http://purl.obolibrary.org/obo/OGSF_",
         "OHD": "http://purl.obolibrary.org/obo/OHD_",
         "OHMI": "http://purl.obolibrary.org/obo/OHMI_",
-        "OLATDV": "http://purl.obolibrary.org/obo/OLATDV_",
+        "OHPI": "http://purl.obolibrary.org/obo/OHPI_",
         "OMIABIS": "http://purl.obolibrary.org/obo/OMIABIS_",
         "OMIT": "http://purl.obolibrary.org/obo/OMIT_",
+        "OMO": "http://purl.obolibrary.org/obo/OMO_",
         "OMP": "http://purl.obolibrary.org/obo/OMP_",
         "OMRSE": "http://purl.obolibrary.org/obo/OMRSE_",
+        "ONE": "http://purl.obolibrary.org/obo/ONE_",
+        "ONS": "http://purl.obolibrary.org/obo/ONS_",
         "ONTONEO": "http://purl.obolibrary.org/obo/ONTONEO_",
         "OOSTT": "http://purl.obolibrary.org/obo/OOSTT_",
         "OPL": "http://purl.obolibrary.org/obo/OPL_",
+        "OPMI": "http://purl.obolibrary.org/obo/OPMI_",
+        "ORNASEQ": "http://purl.obolibrary.org/obo/ORNASEQ_",
         "OVAE": "http://purl.obolibrary.org/obo/OVAE_",
+        "OlatDv": "http://purl.obolibrary.org/obo/OlatDv_",
         "PAO": "http://purl.obolibrary.org/obo/PAO_",
         "PDRO": "http://purl.obolibrary.org/obo/PDRO_",
-        "PDUMDV": "http://purl.obolibrary.org/obo/PDUMDV_",
         "PD_ST": "http://purl.obolibrary.org/obo/PD_ST_",
         "PECO": "http://purl.obolibrary.org/obo/PECO_",
         "PGDSO": "http://purl.obolibrary.org/obo/PGDSO_",
+        "PHIPO": "http://purl.obolibrary.org/obo/PHIPO_",
         "PLANA": "http://purl.obolibrary.org/obo/PLANA_",
+        "PLANP": "http://purl.obolibrary.org/obo/PLANP_",
         "PLO": "http://purl.obolibrary.org/obo/PLO_",
         "PO": "http://purl.obolibrary.org/obo/PO_",
         "PORO": "http://purl.obolibrary.org/obo/PORO_",
         "PPO": "http://purl.obolibrary.org/obo/PPO_",
         "PROPREO": "http://purl.obolibrary.org/obo/PROPREO_",
+        "PSDO": "http://purl.obolibrary.org/obo/PSDO_",
+        "PSO": "http://purl.obolibrary.org/obo/PSO_",
+        "PdumDv": "http://purl.obolibrary.org/obo/PdumDv_",
+        "RBO": "http://purl.obolibrary.org/obo/RBO_",
         "RESID": "http://purl.obolibrary.org/obo/RESID_",
         "REX": "http://purl.obolibrary.org/obo/REX_",
         "RNAO": "http://purl.obolibrary.org/obo/RNAO_",
@@ -927,6 +991,7 @@
         "RXNO": "http://purl.obolibrary.org/obo/RXNO_",
         "SAO": "http://purl.obolibrary.org/obo/SAO_",
         "SBO": "http://purl.obolibrary.org/obo/SBO_",
+        "SCDO": "http://purl.obolibrary.org/obo/SCDO_",
         "SEP": "http://purl.obolibrary.org/obo/SEP_",
         "SIBO": "http://purl.obolibrary.org/obo/SIBO_",
         "SOPHARM": "http://purl.obolibrary.org/obo/SOPHARM_",
@@ -942,14 +1007,15 @@
         "TO": "http://purl.obolibrary.org/obo/TO_",
         "TRANS": "http://purl.obolibrary.org/obo/TRANS_",
         "TTO": "http://purl.obolibrary.org/obo/TTO_",
+        "TXPO": "http://purl.obolibrary.org/obo/TXPO_",
+        "UPA": "http://purl.obolibrary.org/obo/UPA_",
         "VARIO": "http://purl.obolibrary.org/obo/VARIO_",
         "VHOG": "http://purl.obolibrary.org/obo/VHOG_",
         "VO": "http://purl.obolibrary.org/obo/VO_",
         "VSAO": "http://purl.obolibrary.org/obo/VSAO_",
         "VTO": "http://purl.obolibrary.org/obo/VTO_",
-        "WBBT": "http://purl.obolibrary.org/obo/WBBT_",
-        "WBLS": "http://purl.obolibrary.org/obo/WBLS_",
-        "XL": "http://purl.obolibrary.org/obo/XL_",
+        "WBls": "http://purl.obolibrary.org/obo/WBls_",
+        "XLMOD": "http://purl.obolibrary.org/obo/XLMOD_",
         "YPO": "http://purl.obolibrary.org/obo/YPO_",
         "ZEA": "http://purl.obolibrary.org/obo/ZEA_",
         "ZECO": "http://purl.obolibrary.org/obo/ZECO_"
diff --git a/registry/idot_context.jsonld b/registry/idot_context.jsonld
index d7777ca..2b372f8 100644
--- a/registry/idot_context.jsonld
+++ b/registry/idot_context.jsonld
@@ -484,7 +484,7 @@
     "NONCODEV4.GENE": "http://identifiers.org/noncodev4.gene/",
     "WIKIGENES": "http://identifiers.org/wikigenes/",
     "GWASCENTRAL.STUDY": "http://identifiers.org/gwascentral.study/",
-    "NCBIGENE": "http://identifiers.org/ncbigene/",
+    "NCBIGene": "http://identifiers.org/ncbigene/",
     "GRID": "http://identifiers.org/grid/",
     "MP": "http://identifiers.org/mp/",
     "SIDER.EFFECT": "http://identifiers.org/sider.effect/",
diff --git a/registry/idot_nr_context.jsonld b/registry/idot_nr_context.jsonld
index 8e87355..85dbc74 100644
--- a/registry/idot_nr_context.jsonld
+++ b/registry/idot_nr_context.jsonld
@@ -456,7 +456,7 @@
         "NONCODEV4.GENE": "http://identifiers.org/noncodev4.gene/",
         "WIKIGENES": "http://identifiers.org/wikigenes/",
         "GWASCENTRAL.STUDY": "http://identifiers.org/gwascentral.study/",
-        "NCBIGENE": "http://identifiers.org/ncbigene/",
+        "NCBIGene": "http://identifiers.org/ncbigene/",
         "GRID": "http://identifiers.org/grid/",
         "SIDER.EFFECT": "http://identifiers.org/sider.effect/",
         "EXAC.VARIANT": "http://identifiers.org/exac.variant/",
diff --git a/registry/monarch_context.jsonld b/registry/monarch_context.jsonld
index e42af1d..d47fa04 100644
--- a/registry/monarch_context.jsonld
+++ b/registry/monarch_context.jsonld
@@ -5,12 +5,15 @@
         "APO": "http://purl.obolibrary.org/obo/APO_",
         "AQTLPub": "https://www.animalgenome.org/cgi-bin/QTLdb/BT/qabstract?PUBMED_ID=",
         "AQTLTrait": "http://identifiers.org/animalqtltrait/",
+        "AspGD": "http://www.aspergillusgenome.org/cgi-bin/locus.pl?dbid=",
+        "AspGD_REF": "http://www.aspergillusgenome.org/cgi-bin/reference/reference.pl?dbid=",
         "BFO": "http://purl.obolibrary.org/obo/BFO_",
+        "BGD": "http://bovinegenome.org/genepages/btau40/genes/",
         "BIOGRID": "http://thebiogrid.org/",
-        "biolink" : "https://w3id.org/biolink/vocab/",
         "BNODE": "https://monarchinitiative.org/.well-known/genid/",
         "BT": "http://c.biothings.io/#",
         "CCDS": "http://www.ncbi.nlm.nih.gov/CCDS/CcdsBrowse.cgi?REQUEST=CCDS&DATA=",
+        "CGNC": "http://birdgenenames.org/cgnc/GeneReport?id=",
         "CHEBI": "http://purl.obolibrary.org/obo/CHEBI_",
         "CHR": "http://purl.obolibrary.org/obo/CHR_",
         "CID": "http://pubchem.ncbi.nlm.nih.gov/compound/",
@@ -18,66 +21,78 @@
         "CLO": "http://purl.obolibrary.org/obo/CLO_",
         "CMMR": "http://www.cmmr.ca/order.php?t=m&id=",
         "CMO": "http://purl.obolibrary.org/obo/CMO_",
+        "COHD": "http://purl.obolibrary.org/obo/COHD_",
         "COSMIC": "http://cancer.sanger.ac.uk/cosmic/mutation/overview?id=",
         "ClinVar": "http://www.ncbi.nlm.nih.gov/clinvar/",
         "ClinVarSubmitters": "http://www.ncbi.nlm.nih.gov/clinvar/submitters/",
         "ClinVarVariant": "http://www.ncbi.nlm.nih.gov/clinvar/variation/",
+        "ComplexPortal": "https://www.ebi.ac.uk/complexportal/complex/",
         "Coriell": "https://catalog.coriell.org/0/Sections/Search/Sample_Detail.aspx?Ref=",
         "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_",
+        "DECIPHER": "https://decipher.sanger.ac.uk/syndrome/",
         "DOI": "http://dx.doi.org/",
         "DOID": "http://purl.obolibrary.org/obo/DOID_",
         "DrugBank": "http://www.drugbank.ca/drugs/",
-        "EC": "http://www.enzyme-database.org/query.php?ec=",
+        "EC": "https://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/",
         "ENVO": "http://purl.obolibrary.org/obo/ENVO_",
-        "EOM": "http://purl.obolibrary.org/obo/EOM_",
+        "EOM": "https://elementsofmorphology.nih.gov/index.cgi?tid=",
+        "EOM_IMG": "https://elementsofmorphology.nih.gov/images/terms/",
         "ERO": "http://purl.obolibrary.org/obo/ERO_",
         "EcoGene": "http://ecogene.org/gene/",
+        "EnsemblGenome": "http://www.ensemblgenomes.org/id/",
         "FBbt": "http://purl.obolibrary.org/obo/FBbt_",
         "FBcv": "http://purl.obolibrary.org/obo/FBcv_",
         "FBdv": "http://purl.obolibrary.org/obo/FBdv_",
         "FDADrug": "http://www.fda.gov/Drugs/InformationOnDrugs/",
         "FlyBase": "http://flybase.org/reports/",
+        "GARD": "http://purl.obolibrary.org/obo/GARD_",
         "GENO": "http://purl.obolibrary.org/obo/GENO_",
         "GINAS": "http://tripod.nih.gov/ginas/app/substance#",
         "GO": "http://purl.obolibrary.org/obo/GO_",
         "GO_REF": "http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:",
+        "GWAS": "https://www.ebi.ac.uk/gwas/variants/",
         "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=",
+        "HGNC": "https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC:",
         "HMDB": "http://www.hmdb.ca/metabolites/",
         "HOMOLOGENE": "http://www.ncbi.nlm.nih.gov/homologene/",
         "HP": "http://purl.obolibrary.org/obo/HP_",
         "HPO": "http://human-phenotype-ontology.org/",
         "HPRD": "http://www.hprd.org/protein/",
         "IAO": "http://purl.obolibrary.org/obo/IAO_",
-        "IMPC": "http://www.mousephenotype.org/data/genes/",
-        "IMPRESS-parameter": "https://www.mousephenotype.org/impress/parameterontologies/",
-        "IMPRESS-procedure": "https://www.mousephenotype.org/impress/procedures/",
-        "IMPRESS-protocol": "https://www.mousephenotype.org/impress/protocol/",
+        "ICD9": "http://purl.obolibrary.org/obo/ICD9_",
+        "IMPC": "https://www.mousephenotype.org/data/genes/",
+        "IMPC-param": "https://www.mousephenotype.org/impress/OntologyInfo?action=list&procID=",
+        "IMPC-pipe": "https://www.mousephenotype.org/impress/PipelineInfo?id=",
+        "IMPC-proc": "https://www.mousephenotype.org/impress/ProcedureInfo?action=list&procID=",
         "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=",
+        "InterPro": "https://www.ebi.ac.uk/interpro/entry/InterPro/",
         "J": "http://www.informatics.jax.org/reference/J:",
         "JAX": "http://jaxmice.jax.org/strain/",
         "KEGG-ds": "http://purl.obolibrary.org/KEGG-ds_",
         "KEGG-hsa": "http://www.kegg.jp/dbget-bin/www_bget?hsa:",
+        "KEGG-img": "http://www.genome.jp/kegg/pathway/map/",
         "KEGG-ko": "http://www.kegg.jp/dbget-bin/www_bget?ko:",
         "KEGG-path": "http://www.kegg.jp/dbget-bin/www_bget?path:",
+        "LIDA": "http://sydney.edu.au/vetscience/lida/dogs/search/disorder/",
         "LPT": "http://purl.obolibrary.org/obo/LPT_",
         "MA": "http://purl.obolibrary.org/obo/MA_",
         "MEDDRA": "http://purl.bioontology.org/ontology/MEDDRA/",
-        "MESH": "http://purl.obolibrary.org/obo/MESH_",
+        "MESH": "http://id.nlm.nih.gov/mesh/",
         "MGI": "http://www.informatics.jax.org/accession/MGI:",
         "MMRRC": "https://www.mmrrc.org/catalog/sds.php?mmrrc_id=",
         "MONARCH": "https://monarchinitiative.org/MONARCH_",
@@ -89,12 +104,14 @@
         "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/",
         "MonarchData": "https://data.monarchinitiative.org/ttl/",
+        "MonarchLogoRepo": "https://github.com/monarch-initiative/monarch-ui/blob/master/public/img/sources/",
         "NBO": "http://purl.obolibrary.org/obo/NBO_",
-        "NCBIAssembly": "http://www.ncbi.nlm.nih.gov/assembly/",
-        "NCBIGene": "http://www.ncbi.nlm.nih.gov/gene/",
-        "NCBIGenome": "http://www.ncbi.nlm.nih.gov/genome/",
+        "NCBIAssembly": "https://www.ncbi.nlm.nih.gov/assembly?term=",
+        "NCBIBSgene": "http://www.ncbi.nlm.nih.gov/bookshelf/br.fcgi?book=gene&part=",
+        "NCBIGene": "https://www.ncbi.nlm.nih.gov/gene/",
+        "NCBIGenome": "https://www.ncbi.nlm.nih.gov/genome/",
         "NCBIProtein": "http://www.ncbi.nlm.nih.gov/protein/",
         "NCBITaxon": "http://purl.obolibrary.org/obo/NCBITaxon_",
         "NCIMR": "https://mouse.ncifcrf.gov/available_details.asp?ID=",
@@ -104,11 +121,11 @@
         "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": "https://omia.org/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/",
+        "OMIMPS": "http://www.omim.org/phenotypicSeries/",
+        "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_",
@@ -119,13 +136,14 @@
         "PR": "http://purl.obolibrary.org/obo/PR_",
         "PW": "http://purl.obolibrary.org/obo/PW_",
         "PomBase": "https://www.pombase.org/spombe/result/",
-        "RBRC": "http://www2.brc.riken.jp/lab/animal/detail.php?brc_no=RBRC",
+        "RBRC": "http://www2.brc.riken.jp/lab/animal/detail.php?brc_no=",
         "REACT": "http://www.reactome.org/PathwayBrowser/#/",
         "RGD": "http://rgd.mcw.edu/rgdweb/report/gene/main.html?id=",
         "RGDRef": "http://rgd.mcw.edu/rgdweb/report/reference/main.html?id=",
         "RO": "http://purl.obolibrary.org/obo/RO_",
         "RXCUI": "http://purl.bioontology.org/ontology/RXNORM/",
         "RefSeq": "http://www.ncbi.nlm.nih.gov/refseq/?term=",
+        "SCTID": "http://purl.obolibrary.org/obo/SCTID_",
         "SEPIO": "http://purl.obolibrary.org/obo/SEPIO_",
         "SGD": "https://www.yeastgenome.org/locus/",
         "SGD_REF": "https://www.yeastgenome.org/reference/",
@@ -139,11 +157,13 @@
         "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_",
@@ -153,33 +173,40 @@
         "WormBase": "https://www.wormbase.org/get?name=",
         "XAO": "http://purl.obolibrary.org/obo/XAO_",
         "XCO": "http://purl.obolibrary.org/obo/XCO_",
-        "Xenbase": "http://www.xenbase.org/gene/showgene.do?method=display&geneId=",
+        "XPO": "http://purl.obolibrary.org/obo/XPO_",
+        "Xenbase": "http://identifiers.org/xenbase/",
         "ZFA": "http://purl.obolibrary.org/obo/ZFA_",
         "ZFIN": "http://zfin.org/",
         "ZFS": "http://purl.obolibrary.org/obo/ZFS_",
         "ZP": "http://purl.obolibrary.org/obo/ZP_",
+        "biolink": "https://w3id.org/biolink/vocab/",
         "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=",
+        "cito": "http://purl.org/spar/cito/",
         "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=",
         "dbVar": "http://www.ncbi.nlm.nih.gov/dbvar/",
-        "dc": "http://purl.org/dc/elements/1.1/",
+        "dc": "http://purl.org/dc/terms/",
         "dcat": "http://www.w3.org/ns/dcat#",
-        "dcterms": "http://purl.org/dc/terms/",
         "dctypes": "http://purl.org/dc/dcmitype/",
         "dictyBase": "http://dictybase.org/gene/",
         "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=",
         "rainbow_troutQTL": "https://www.animalgenome.org/cgi-bin/QTLdb/OM/qdetails?QTL_ID=",
         "rdf": "http://www.w3.org/1999/02/22-rdf-syntax-ns#",
         "rdfs": "http://www.w3.org/2000/01/rdf-schema#",
+        "schema": "http://schema.org/",
         "sheepQTL": "https://www.animalgenome.org/cgi-bin/QTLdb/OA/qdetails?QTL_ID=",
-        "skos": "https://www.w3.org/TR/skos-reference/#",
+        "skos": "http://www.w3.org/2004/02/skos/core#",
+        "vfb": "http://virtualflybrain.org/reports/",
+        "void": "http://rdfs.org/ns/void#",
         "xml": "http://www.w3.org/XML/1998/namespace",
         "xsd": "http://www.w3.org/2001/XMLSchema#"
     }
diff --git a/registry/obo_context.jsonld b/registry/obo_context.jsonld
index 6f79ea8..d7667b8 100644
--- a/registry/obo_context.jsonld
+++ b/registry/obo_context.jsonld
@@ -5,7 +5,10 @@
         "AEO": "http://purl.obolibrary.org/obo/AEO_",
         "AERO": "http://purl.obolibrary.org/obo/AERO_",
         "AGRO": "http://purl.obolibrary.org/obo/AGRO_",
+        "AISM": "http://purl.obolibrary.org/obo/AISM_",
+        "AMPHX": "http://purl.obolibrary.org/obo/AMPHX_",
         "APO": "http://purl.obolibrary.org/obo/APO_",
+        "APOLLO_SV": "http://purl.obolibrary.org/obo/APOLLO_SV_",
         "ARO": "http://purl.obolibrary.org/obo/ARO_",
         "ATO": "http://purl.obolibrary.org/obo/ATO_",
         "BCGO": "http://purl.obolibrary.org/obo/BCGO_",
@@ -17,17 +20,24 @@
         "BTO": "http://purl.obolibrary.org/obo/BTO_",
         "CARO": "http://purl.obolibrary.org/obo/CARO_",
         "CDAO": "http://purl.obolibrary.org/obo/CDAO_",
+        "CDNO": "http://purl.obolibrary.org/obo/CDNO_",
         "CEPH": "http://purl.obolibrary.org/obo/CEPH_",
         "CHEBI": "http://purl.obolibrary.org/obo/CHEBI_",
         "CHEMINF": "http://purl.obolibrary.org/obo/CHEMINF_",
+        "CHIRO": "http://purl.obolibrary.org/obo/CHIRO_",
         "CHMO": "http://purl.obolibrary.org/obo/CHMO_",
+        "CIDO": "http://purl.obolibrary.org/obo/CIDO_",
         "CIO": "http://purl.obolibrary.org/obo/CIO_",
         "CL": "http://purl.obolibrary.org/obo/CL_",
+        "CLAO": "http://purl.obolibrary.org/obo/CLAO_",
         "CLO": "http://purl.obolibrary.org/obo/CLO_",
+        "CLYH": "http://purl.obolibrary.org/obo/CLYH_",
         "CMF": "http://purl.obolibrary.org/obo/CMF_",
         "CMO": "http://purl.obolibrary.org/obo/CMO_",
+        "COB": "http://purl.obolibrary.org/obo/COB_",
         "CRO": "http://purl.obolibrary.org/obo/CRO_",
         "CTENO": "http://purl.obolibrary.org/obo/CTENO_",
+        "CTO": "http://purl.obolibrary.org/obo/CTO_",
         "CVDO": "http://purl.obolibrary.org/obo/CVDO_",
         "DC_CL": "http://purl.obolibrary.org/obo/DC_CL_",
         "DDANAT": "http://purl.obolibrary.org/obo/DDANAT_",
@@ -37,8 +47,10 @@
         "DOID": "http://purl.obolibrary.org/obo/DOID_",
         "DRON": "http://purl.obolibrary.org/obo/DRON_",
         "DUO": "http://purl.obolibrary.org/obo/DUO_",
+        "ECAO": "http://purl.obolibrary.org/obo/ECAO_",
         "ECO": "http://purl.obolibrary.org/obo/ECO_",
         "ECOCORE": "http://purl.obolibrary.org/obo/ECOCORE_",
+        "ECTO": "http://purl.obolibrary.org/obo/ECTO_",
         "EHDA": "http://purl.obolibrary.org/obo/EHDA_",
         "EHDAA": "http://purl.obolibrary.org/obo/EHDAA_",
         "EHDAA2": "http://purl.obolibrary.org/obo/EHDAA2_",
@@ -50,44 +62,58 @@
         "ERO": "http://purl.obolibrary.org/obo/ERO_",
         "EUPATH": "http://purl.obolibrary.org/obo/EUPATH_",
         "EV": "http://purl.obolibrary.org/obo/EV_",
-        "EXO": "http://purl.obolibrary.org/obo/EXO_",
+        "ExO": "http://purl.obolibrary.org/obo/ExO_",
         "FAO": "http://purl.obolibrary.org/obo/FAO_",
         "FBSP": "http://purl.obolibrary.org/obo/FBSP_",
         "FBbi": "http://purl.obolibrary.org/obo/FBbi_",
         "FBbt": "http://purl.obolibrary.org/obo/FBbt_",
         "FBcv": "http://purl.obolibrary.org/obo/FBcv_",
         "FBdv": "http://purl.obolibrary.org/obo/FBdv_",
+        "FIDEO": "http://purl.obolibrary.org/obo/FIDEO_",
         "FIX": "http://purl.obolibrary.org/obo/FIX_",
         "FLOPO": "http://purl.obolibrary.org/obo/FLOPO_",
         "FLU": "http://purl.obolibrary.org/obo/FLU_",
         "FMA": "http://purl.obolibrary.org/obo/FMA_",
+        "FOBI": "http://purl.obolibrary.org/obo/FOBI_",
         "FOODON": "http://purl.obolibrary.org/obo/FOODON_",
+        "FOVT": "http://purl.obolibrary.org/obo/FOVT_",
         "FYPO": "http://purl.obolibrary.org/obo/FYPO_",
         "GAZ": "http://purl.obolibrary.org/obo/GAZ_",
+        "GECKO": "http://purl.obolibrary.org/obo/GECKO_",
         "GENEPIO": "http://purl.obolibrary.org/obo/GENEPIO_",
         "GENO": "http://purl.obolibrary.org/obo/GENO_",
         "GEO": "http://purl.obolibrary.org/obo/GEO_",
+        "GNO": "http://purl.obolibrary.org/obo/GNO_",
         "GO": "http://purl.obolibrary.org/obo/GO_",
         "GRO": "http://purl.obolibrary.org/obo/GRO_",
+        "GSSO": "http://purl.obolibrary.org/obo/GSSO_",
         "HABRONATTUS": "http://purl.obolibrary.org/obo/HABRONATTUS_",
+        "HANCESTRO": "http://purl.obolibrary.org/obo/HANCESTRO_",
         "HAO": "http://purl.obolibrary.org/obo/HAO_",
         "HOM": "http://purl.obolibrary.org/obo/HOM_",
         "HP": "http://purl.obolibrary.org/obo/HP_",
-        "HSAPDV": "http://purl.obolibrary.org/obo/HSAPDV_",
+        "HSO": "http://purl.obolibrary.org/obo/HSO_",
+        "HTN": "http://purl.obolibrary.org/obo/HTN_",
+        "HsapDv": "http://purl.obolibrary.org/obo/HsapDv_",
         "IAO": "http://purl.obolibrary.org/obo/IAO_",
+        "ICEO": "http://purl.obolibrary.org/obo/ICEO_",
         "ICO": "http://purl.obolibrary.org/obo/ICO_",
         "IDO": "http://purl.obolibrary.org/obo/IDO_",
         "IDOMAL": "http://purl.obolibrary.org/obo/IDOMAL_",
         "IEV": "http://purl.obolibrary.org/obo/IEV_",
         "IMR": "http://purl.obolibrary.org/obo/IMR_",
+        "INO": "http://purl.obolibrary.org/obo/INO_",
         "IPR": "http://purl.obolibrary.org/obo/IPR_",
         "KISAO": "http://purl.obolibrary.org/obo/KISAO_",
+        "LABO": "http://purl.obolibrary.org/obo/LABO_",
         "LIPRO": "http://purl.obolibrary.org/obo/LIPRO_",
         "LOGGERHEAD": "http://purl.obolibrary.org/obo/LOGGERHEAD_",
         "MA": "http://purl.obolibrary.org/obo/MA_",
         "MAMO": "http://purl.obolibrary.org/obo/MAMO_",
         "MAO": "http://purl.obolibrary.org/obo/MAO_",
         "MAT": "http://purl.obolibrary.org/obo/MAT_",
+        "MAXO": "http://purl.obolibrary.org/obo/MAXO_",
+        "MCO": "http://purl.obolibrary.org/obo/MCO_",
         "MF": "http://purl.obolibrary.org/obo/MF_",
         "MFMO": "http://purl.obolibrary.org/obo/MFMO_",
         "MFO": "http://purl.obolibrary.org/obo/MFO_",
@@ -99,7 +125,6 @@
         "MIRNAO": "http://purl.obolibrary.org/obo/MIRNAO_",
         "MIRO": "http://purl.obolibrary.org/obo/MIRO_",
         "MMO": "http://purl.obolibrary.org/obo/MMO_",
-        "MMUSDV": "http://purl.obolibrary.org/obo/MMUSDV_",
         "MO": "http://purl.obolibrary.org/obo/MO_",
         "MOD": "http://purl.obolibrary.org/obo/MOD_",
         "MONDO": "http://purl.obolibrary.org/obo/MONDO_",
@@ -109,6 +134,7 @@
         "MPIO": "http://purl.obolibrary.org/obo/MPIO_",
         "MRO": "http://purl.obolibrary.org/obo/MRO_",
         "MS": "http://purl.obolibrary.org/obo/MS_",
+        "MmusDv": "http://purl.obolibrary.org/obo/MmusDv_",
         "NBO": "http://purl.obolibrary.org/obo/NBO_",
         "NCBITaxon": "http://purl.obolibrary.org/obo/NCBITaxon_",
         "NCIT": "http://purl.obolibrary.org/obo/NCIT_",
@@ -117,6 +143,7 @@
         "NIF_DYSFUNCTION": "http://purl.obolibrary.org/obo/NIF_DYSFUNCTION_",
         "NIF_GROSSANATOMY": "http://purl.obolibrary.org/obo/NIF_GROSSANATOMY_",
         "NMR": "http://purl.obolibrary.org/obo/NMR_",
+        "NOMEN": "http://purl.obolibrary.org/obo/NOMEN_",
         "OAE": "http://purl.obolibrary.org/obo/OAE_",
         "OARCS": "http://purl.obolibrary.org/obo/OARCS_",
         "OBA": "http://purl.obolibrary.org/obo/OBA_",
@@ -130,31 +157,42 @@
         "OGSF": "http://purl.obolibrary.org/obo/OGSF_",
         "OHD": "http://purl.obolibrary.org/obo/OHD_",
         "OHMI": "http://purl.obolibrary.org/obo/OHMI_",
-        "OLATDV": "http://purl.obolibrary.org/obo/OLATDV_",
+        "OHPI": "http://purl.obolibrary.org/obo/OHPI_",
         "OMIABIS": "http://purl.obolibrary.org/obo/OMIABIS_",
         "OMIT": "http://purl.obolibrary.org/obo/OMIT_",
+        "OMO": "http://purl.obolibrary.org/obo/OMO_",
         "OMP": "http://purl.obolibrary.org/obo/OMP_",
         "OMRSE": "http://purl.obolibrary.org/obo/OMRSE_",
+        "ONE": "http://purl.obolibrary.org/obo/ONE_",
+        "ONS": "http://purl.obolibrary.org/obo/ONS_",
         "ONTONEO": "http://purl.obolibrary.org/obo/ONTONEO_",
         "OOSTT": "http://purl.obolibrary.org/obo/OOSTT_",
         "OPL": "http://purl.obolibrary.org/obo/OPL_",
+        "OPMI": "http://purl.obolibrary.org/obo/OPMI_",
+        "ORNASEQ": "http://purl.obolibrary.org/obo/ORNASEQ_",
         "OVAE": "http://purl.obolibrary.org/obo/OVAE_",
+        "OlatDv": "http://purl.obolibrary.org/obo/OlatDv_",
         "PAO": "http://purl.obolibrary.org/obo/PAO_",
         "PATO": "http://purl.obolibrary.org/obo/PATO_",
         "PCO": "http://purl.obolibrary.org/obo/PCO_",
         "PDRO": "http://purl.obolibrary.org/obo/PDRO_",
-        "PDUMDV": "http://purl.obolibrary.org/obo/PDUMDV_",
         "PD_ST": "http://purl.obolibrary.org/obo/PD_ST_",
         "PECO": "http://purl.obolibrary.org/obo/PECO_",
         "PGDSO": "http://purl.obolibrary.org/obo/PGDSO_",
+        "PHIPO": "http://purl.obolibrary.org/obo/PHIPO_",
         "PLANA": "http://purl.obolibrary.org/obo/PLANA_",
+        "PLANP": "http://purl.obolibrary.org/obo/PLANP_",
         "PLO": "http://purl.obolibrary.org/obo/PLO_",
         "PO": "http://purl.obolibrary.org/obo/PO_",
         "PORO": "http://purl.obolibrary.org/obo/PORO_",
         "PPO": "http://purl.obolibrary.org/obo/PPO_",
         "PR": "http://purl.obolibrary.org/obo/PR_",
         "PROPREO": "http://purl.obolibrary.org/obo/PROPREO_",
+        "PSDO": "http://purl.obolibrary.org/obo/PSDO_",
+        "PSO": "http://purl.obolibrary.org/obo/PSO_",
         "PW": "http://purl.obolibrary.org/obo/PW_",
+        "PdumDv": "http://purl.obolibrary.org/obo/PdumDv_",
+        "RBO": "http://purl.obolibrary.org/obo/RBO_",
         "RESID": "http://purl.obolibrary.org/obo/RESID_",
         "REX": "http://purl.obolibrary.org/obo/REX_",
         "RNAO": "http://purl.obolibrary.org/obo/RNAO_",
@@ -163,6 +201,7 @@
         "RXNO": "http://purl.obolibrary.org/obo/RXNO_",
         "SAO": "http://purl.obolibrary.org/obo/SAO_",
         "SBO": "http://purl.obolibrary.org/obo/SBO_",
+        "SCDO": "http://purl.obolibrary.org/obo/SCDO_",
         "SEP": "http://purl.obolibrary.org/obo/SEP_",
         "SEPIO": "http://purl.obolibrary.org/obo/SEPIO_",
         "SIBO": "http://purl.obolibrary.org/obo/SIBO_",
@@ -181,8 +220,10 @@
         "TO": "http://purl.obolibrary.org/obo/TO_",
         "TRANS": "http://purl.obolibrary.org/obo/TRANS_",
         "TTO": "http://purl.obolibrary.org/obo/TTO_",
+        "TXPO": "http://purl.obolibrary.org/obo/TXPO_",
         "UBERON": "http://purl.obolibrary.org/obo/UBERON_",
         "UO": "http://purl.obolibrary.org/obo/UO_",
+        "UPA": "http://purl.obolibrary.org/obo/UPA_",
         "UPHENO": "http://purl.obolibrary.org/obo/UPHENO_",
         "VARIO": "http://purl.obolibrary.org/obo/VARIO_",
         "VHOG": "http://purl.obolibrary.org/obo/VHOG_",
@@ -190,16 +231,18 @@
         "VSAO": "http://purl.obolibrary.org/obo/VSAO_",
         "VT": "http://purl.obolibrary.org/obo/VT_",
         "VTO": "http://purl.obolibrary.org/obo/VTO_",
-        "WBBT": "http://purl.obolibrary.org/obo/WBBT_",
-        "WBLS": "http://purl.obolibrary.org/obo/WBLS_",
         "WBPhenotype": "http://purl.obolibrary.org/obo/WBPhenotype_",
+        "WBbt": "http://purl.obolibrary.org/obo/WBbt_",
+        "WBls": "http://purl.obolibrary.org/obo/WBls_",
         "XAO": "http://purl.obolibrary.org/obo/XAO_",
         "XCO": "http://purl.obolibrary.org/obo/XCO_",
-        "XL": "http://purl.obolibrary.org/obo/XL_",
+        "XLMOD": "http://purl.obolibrary.org/obo/XLMOD_",
+        "XPO": "http://purl.obolibrary.org/obo/XPO_",
         "YPO": "http://purl.obolibrary.org/obo/YPO_",
         "ZEA": "http://purl.obolibrary.org/obo/ZEA_",
         "ZECO": "http://purl.obolibrary.org/obo/ZECO_",
         "ZFA": "http://purl.obolibrary.org/obo/ZFA_",
-        "ZFS": "http://purl.obolibrary.org/obo/ZFS_"
+        "ZFS": "http://purl.obolibrary.org/obo/ZFS_",
+        "ZP": "http://purl.obolibrary.org/obo/ZP_"
     }
 }
diff --git a/reports/clashes.txt b/reports/clashes.txt
index 6620418..9d9e234 100644
--- a/reports/clashes.txt
+++ b/reports/clashes.txt
@@ -60,6 +60,7 @@ WARNING:root:URI clash: http://mged.sourceforge.net/ontologies/MGEDontology.php#
 WARNING:root:Prefix clash: MO Was=http://mged.sourceforge.net/ontologies/MGEDontology.php# [registry/go_context.jsonld], Now=http://identifiers.org/mo/ [registry/idot_context.jsonld]
 WARNING:root:URI clash: https://www.worldcat.org/search?q=bn%3A is expansion for ISBN and ISBN
 WARNING:root:Prefix clash: ISBN Was=https://www.worldcat.org/search?q=bn%3A [registry/go_context.jsonld], Now=http://identifiers.org/isbn/ [registry/idot_context.jsonld]
+WARNING:root:URI clash: http://identifiers.org/ncbigene/ is expansion for NCBIGene and NCBIGene
 WARNING:root:URI clash: http://ccr.coriell.org/Sections/Search/Sample_Detail.aspx?Ref= is expansion for CORIELL and CORIELL
 WARNING:root:Prefix clash: CORIELL Was=http://ccr.coriell.org/Sections/Search/Sample_Detail.aspx?Ref= [registry/go_context.jsonld], Now=http://identifiers.org/coriell/ [registry/idot_context.jsonld]
 WARNING:root:URI clash: http://purl.obolibrary.org/obo/FMA_ is expansion for FMA and FMA
@@ -70,8 +71,7 @@ WARNING:root:URI clash: http://purl.obolibrary.org/obo/GO_ is expansion for GO a
 WARNING:root:Prefix clash: GO Was=http://purl.obolibrary.org/obo/GO_ [registry/go_context.jsonld], Now=http://identifiers.org/go/ [registry/idot_context.jsonld]
 WARNING:root:URI clash: http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId= is expansion for PDB and PDB
 WARNING:root:Prefix clash: PDB Was=http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId= [registry/go_context.jsonld], Now=http://identifiers.org/pdb/ [registry/idot_context.jsonld]
-WARNING:root:URI clash: http://identifiers.org/mgi/MGI: is expansion for MGI and MGI
-WARNING:root:Prefix clash: MGI Was=http://identifiers.org/mgi/MGI: [registry/go_context.jsonld], Now=http://identifiers.org/mgi/ [registry/idot_context.jsonld]
+WARNING:root:URI clash: http://identifiers.org/mgi/ is expansion for MGI and MGI
 WARNING:root:URI clash: http://identifiers.org/sgn/ is expansion for SGN and SGN
 WARNING:root:URI clash: http://identifiers.org/cgd/ is expansion for CGD and CGD
 WARNING:root:URI clash: http://hamap.expasy.org/unirule/ is expansion for HAMAP and HAMAP
@@ -83,18 +83,21 @@ WARNING:root:URI clash: http://purl.obolibrary.org/obo/PR_ is expansion for PR a
 WARNING:root:Prefix clash: PR Was=http://purl.obolibrary.org/obo/PR_ [registry/go_context.jsonld], Now=http://identifiers.org/pr/ [registry/idot_context.jsonld]
 WARNING:root:URI clash: http://www.brenda-enzymes.info/php/result_flat.php4?ecno= is expansion for BRENDA and BRENDA
 WARNING:root:Prefix clash: BRENDA Was=http://www.brenda-enzymes.info/php/result_flat.php4?ecno= [registry/go_context.jsonld], Now=http://identifiers.org/brenda/ [registry/idot_context.jsonld]
+WARNING:root:URI clash: http://www.aspergillusgenome.org/cgi-bin/locus.pl?dbid= is expansion for AspGD and AspGD
+WARNING:root:URI clash: http://www.aspergillusgenome.org/cgi-bin/reference/reference.pl?dbid= is expansion for AspGD_REF and AspGD_REF
 WARNING:root:URI clash: http://purl.obolibrary.org/obo/BFO_ is expansion for BFO and BFO
 WARNING:root:Prefix clash: BIOGRID Was=http://identifiers.org/biogrid/ [registry/idot_context.jsonld], Now=http://thebiogrid.org/ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: CCDS Was=http://identifiers.org/ccds/ [registry/idot_context.jsonld], Now=http://www.ncbi.nlm.nih.gov/CCDS/CcdsBrowse.cgi?REQUEST=CCDS&DATA= [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: CHEBI Was=http://identifiers.org/chebi/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/CHEBI_ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: CL Was=http://identifiers.org/cl/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/CL_ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: COSMIC Was=http://identifiers.org/cosmic/ [registry/idot_context.jsonld], Now=http://cancer.sanger.ac.uk/cosmic/mutation/overview?id= [registry/monarch_context.jsonld]
+WARNING:root:URI clash: https://www.ebi.ac.uk/complexportal/complex/ is expansion for ComplexPortal and ComplexPortal
 WARNING:root:Prefix clash: DOI Was=http://identifiers.org/doi/ [registry/idot_context.jsonld], Now=http://dx.doi.org/ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: DOID Was=http://identifiers.org/doid/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/DOID_ [registry/monarch_context.jsonld]
 WARNING:root:URI clash: http://www.expasy.org/enzyme/ is expansion for EC and EC
-WARNING:root:Prefix clash: EC Was=http://www.expasy.org/enzyme/ [registry/go_context.jsonld], Now=http://www.enzyme-database.org/query.php?ec= [registry/monarch_context.jsonld]
+WARNING:root:Prefix clash: EC Was=http://www.expasy.org/enzyme/ [registry/go_context.jsonld], Now=https://www.enzyme-database.org/query.php?ec= [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: ECO Was=http://identifiers.org/eco/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/ECO_ [registry/monarch_context.jsonld]
-WARNING:root:Prefix clash: EFO Was=http://identifiers.org/efo/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/EFO_ [registry/monarch_context.jsonld]
+WARNING:root:Prefix clash: EFO Was=http://identifiers.org/efo/ [registry/idot_context.jsonld], Now=http://www.ebi.ac.uk/efo/EFO_ [registry/monarch_context.jsonld]
 WARNING:root:URI clash: http://purl.obolibrary.org/obo/EMAPA_ is expansion for EMAPA and EMAPA
 WARNING:root:URI clash: http://identifiers.org/ensembl/ is expansion for ENSEMBL and ENSEMBL
 WARNING:root:Prefix clash: ENSEMBL Was=http://identifiers.org/ensembl/ [registry/idot_context.jsonld], Now=http://ensembl.org/id/ [registry/monarch_context.jsonld]
@@ -107,27 +110,29 @@ WARNING:root:URI clash: http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleo
 WARNING:root:Prefix clash: GenBank Was=http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val= [registry/go_context.jsonld], Now=http://www.ncbi.nlm.nih.gov/nuccore/ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: HGMD Was=http://identifiers.org/hgmd/ [registry/idot_context.jsonld], Now=http://www.hgmd.cf.ac.uk/ac/gene.php?gene= [registry/monarch_context.jsonld]
 WARNING:root:URI clash: http://identifiers.org/hgnc/ is expansion for HGNC and HGNC
-WARNING:root:Prefix clash: HGNC Was=http://identifiers.org/hgnc/ [registry/idot_context.jsonld], Now=http://www.genenames.org/cgi-bin/gene_symbol_report?hgnc_id= [registry/monarch_context.jsonld]
+WARNING:root:Prefix clash: HGNC Was=http://identifiers.org/hgnc/ [registry/idot_context.jsonld], Now=https://www.genenames.org/data/gene-symbol-report/#!/hgnc_id/HGNC: [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: HMDB Was=http://identifiers.org/hmdb/ [registry/idot_context.jsonld], Now=http://www.hmdb.ca/metabolites/ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: HOMOLOGENE Was=http://identifiers.org/homologene/ [registry/idot_context.jsonld], Now=http://www.ncbi.nlm.nih.gov/homologene/ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: HP Was=http://identifiers.org/hp/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/HP_ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: HPRD Was=http://identifiers.org/hprd/ [registry/idot_context.jsonld], Now=http://www.hprd.org/protein/ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: IAO Was=http://identifiers.org/iao/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/IAO_ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: ISBN Was=http://identifiers.org/isbn/ [registry/idot_context.jsonld], Now=https://monarchinitiative.org/ISBN_ [registry/monarch_context.jsonld]
+WARNING:root:URI clash: http://identifiers.org/interpro/ is expansion for InterPro and InterPro
+WARNING:root:Prefix clash: InterPro Was=http://identifiers.org/interpro/ [registry/go_context.jsonld], Now=https://www.ebi.ac.uk/interpro/entry/InterPro/ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: MA Was=http://identifiers.org/ma/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/MA_ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: MEDDRA Was=http://identifiers.org/meddra/ [registry/idot_context.jsonld], Now=http://purl.bioontology.org/ontology/MEDDRA/ [registry/monarch_context.jsonld]
-WARNING:root:Prefix clash: MESH Was=http://identifiers.org/mesh/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/MESH_ [registry/monarch_context.jsonld]
+WARNING:root:Prefix clash: MESH Was=http://identifiers.org/mesh/ [registry/idot_context.jsonld], Now=http://id.nlm.nih.gov/mesh/ [registry/monarch_context.jsonld]
+WARNING:root:URI clash: http://identifiers.org/mgi/ is expansion for MGI and MGI
 WARNING:root:Prefix clash: MGI Was=http://identifiers.org/mgi/ [registry/idot_context.jsonld], Now=http://www.informatics.jax.org/accession/MGI: [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: MMRRC Was=http://identifiers.org/mmrrc/ [registry/idot_context.jsonld], Now=https://www.mmrrc.org/catalog/sds.php?mmrrc_id= [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: MP Was=http://identifiers.org/mp/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/MP_ [registry/monarch_context.jsonld]
 WARNING:root:URI clash: http://identifiers.org/ncbigene/ is expansion for NCBIGene and NCBIGene
-WARNING:root:Prefix clash: NCBIGene Was=http://identifiers.org/ncbigene/ [registry/go_context.jsonld], Now=http://www.ncbi.nlm.nih.gov/gene/ [registry/monarch_context.jsonld]
+WARNING:root:Prefix clash: NCBIGene Was=http://identifiers.org/ncbigene/ [registry/idot_context.jsonld], Now=https://www.ncbi.nlm.nih.gov/gene/ [registry/monarch_context.jsonld]
 WARNING:root:URI clash: http://purl.obolibrary.org/obo/NCBITaxon_ is expansion for NCBITaxon and NCBITaxon
 WARNING:root:Prefix clash: NCIT Was=http://identifiers.org/ncit/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/NCIT_ [registry/monarch_context.jsonld]
 WARNING:root:Prefix clash: OBI Was=http://identifiers.org/obi/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/OBI_ [registry/monarch_context.jsonld]
-WARNING:root:Prefix clash: OMIA Was=http://identifiers.org/omia/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/OMIA_ [registry/monarch_context.jsonld]
+WARNING:root:Prefix clash: OMIA Was=http://identifiers.org/omia/ [registry/idot_context.jsonld], Now=https://omia.org/OMIA [registry/monarch_context.jsonld]
 WARNING:root:URI clash: http://omim.org/entry/ is expansion for OMIM and OMIM
-WARNING:root:Prefix clash: OMIM Was=http://omim.org/entry/ [registry/go_context.jsonld], Now=http://purl.obolibrary.org/obo/OMIM_ [registry/monarch_context.jsonld]
 WARNING:root:URI clash: http://www.pantherdb.org/panther/lookupId.jsp?id=PTHR is expansion for PAINT_REF and PAINT_REF
 WARNING:root:Prefix clash: PAINT_REF Was=http://www.pantherdb.org/panther/lookupId.jsp?id=PTHR [registry/go_context.jsonld], Now=http://www.geneontology.org/gene-associations/submission/paint/ [registry/monarch_context.jsonld]
 WARNING:root:URI clash: http://identifiers.org/panther.family/ is expansion for PANTHER and PANTHER
@@ -159,17 +164,14 @@ WARNING:root:Prefix clash: UO Was=http://identifiers.org/uo/ [registry/idot_cont
 WARNING:root:URI clash: http://identifiers.org/uniprot/ is expansion for UniProtKB and UniProtKB
 WARNING:root:URI clash: http://purl.obolibrary.org/obo/WBPhenotype_ is expansion for WBPhenotype and WBPhenotype
 WARNING:root:URI clash: http://identifiers.org/xenbase/ is expansion for Xenbase and Xenbase
-WARNING:root:Prefix clash: Xenbase Was=http://identifiers.org/xenbase/ [registry/go_context.jsonld], Now=http://www.xenbase.org/gene/showgene.do?method=display&geneId= [registry/monarch_context.jsonld]
 WARNING:root:URI clash: http://identifiers.org/zfin/ is expansion for ZFIN and ZFIN
 WARNING:root:Prefix clash: ZFIN Was=http://identifiers.org/zfin/ [registry/idot_context.jsonld], Now=http://zfin.org/ [registry/monarch_context.jsonld]
 WARNING:root:URI clash: http://identifiers.org/dbsnp/ is expansion for dbSNP and dbSNP
 WARNING:root:Prefix clash: dbSNP Was=http://identifiers.org/dbsnp/ [registry/go_context.jsonld], Now=http://www.ncbi.nlm.nih.gov/projects/SNP/snp_ref.cgi?rs= [registry/monarch_context.jsonld]
-WARNING:root:Prefix clash: dc Was=http://purl.org/dc/terms/ [registry/semweb_context.jsonld], Now=http://purl.org/dc/elements/1.1/ [registry/monarch_context.jsonld]
-WARNING:root:URI clash: http://purl.org/dc/terms/ is expansion for dcterms and dc
 WARNING:root:URI clash: http://identifiers.org/dictybase.gene/ is expansion for dictyBase and dictyBase
 WARNING:root:Prefix clash: dictyBase Was=http://identifiers.org/dictybase.gene/ [registry/go_context.jsonld], Now=http://dictybase.org/gene/ [registry/monarch_context.jsonld]
 WARNING:root:URI clash: http://www.w3.org/2001/XMLSchema# is expansion for xsd and xsd
-WARNING:root:Prefix clash: dc Was=http://purl.org/dc/elements/1.1/ [registry/monarch_context.jsonld], Now=http://purl.org/dc/terms/ [registry/semweb_vocab_context.jsonld]
+WARNING:root:URI clash: http://purl.org/dc/terms/ is expansion for dc and dc
 WARNING:root:URI clash: http://www.w3.org/ns/dcat# is expansion for dcat and dcat
 WARNING:root:URI clash: http://www.w3.org/2002/07/owl# is expansion for owl and owl
 WARNING:root:URI clash: http://xmlns.com/foaf/0.1/ is expansion for foaf and foaf
@@ -211,3 +213,4 @@ WARNING:root:URI clash: http://purl.obolibrary.org/obo/SO_ is expansion for SO a
 WARNING:root:URI clash: http://purl.obolibrary.org/obo/UBERON_ is expansion for UBERON and UBERON
 WARNING:root:Prefix clash: VARIO Was=http://identifiers.org/vario/ [registry/idot_context.jsonld], Now=http://purl.obolibrary.org/obo/VARIO_ [registry/obo_context.jsonld]
 WARNING:root:URI clash: http://purl.obolibrary.org/obo/WBPhenotype_ is expansion for WBPhenotype and WBPhenotype
+WARNING:root:URI clash: http://purl.obolibrary.org/obo/WBls_ is expansion for WBls and WBls