Open Schmoho opened 1 month ago
I just went through Biomodels, BiGG and some models of our group to find identifiers.org URLs that are not using valid namespaces.
Labeled as "feature" because this aims to repair broken data, not annotate and curate valid data.
Here is the list of those where it is obvious how to repair them:
["reactome.compound" "http://identifiers.org/reactome.compound/8851513"] ["reactome.reaction" "http://identifiers.org/reactome.reaction/R-SCE-70523"] ["biomodels.sbo" "http://identifiers.org/biomodels.sbo/SBO:0000281"] ["inchi_key" "http://identifiers.org/inchi_key/BGWGXPAPYGQALX-OEXCPVAWSA-L"] ["ncbigi" "http://identifiers.org/ncbigi/16129989"] ["obo.bto" "http://identifiers.org/obo.bto/BTO:0000575"] ["obo.chebi" "http://identifiers.org/obo.chebi/CHEBI:33704"] ["obo.fma" "http://identifiers.org/obo.fma/FMA:74531"] ["obo.go" "http://identifiers.org/obo.go/GO:0004674"] ["obo.pato" "http://identifiers.org/obo.pato/PATO:0001021"] ["obo.psi-mod" "http://identifiers.org/obo.psi-mod/MOD:00890"] ["obo.pw" "http://identifiers.org/obo.pw/PW:0000565"] ["psi-mod" "http://identifiers.org/psi-mod/MOD:00000"] ["psimod" "http://identifiers.org/psimod/MOD:00048"] ["seed.reactions" "https://identifiers.org/seed.reactions:rxn01396"]
For those I have no clue:
["bind" "http://identifiers.org/bind/50058"] ["EnsemblGenomes-Gn" "http://identifiers.org/EnsemblGenomes-Gn/ECUMN_4058"] ["EnsemblGenomes-Tr" "http://identifiers.org/EnsemblGenomes-Tr/CAP75598"] ["omim" "http://identifiers.org/omim/601417"] ["PSEUDO" "http://identifiers.org/PSEUDO/CAB14182.3"] ["psimi" "http://identifiers.org/psimi/MI:0501"] ["refseq_locus_tag" "http://identifiers.org/refseq_locus_tag/EC55989_0350"] ["refseq_name" "http://identifiers.org/refseq_name/cls-1"] ["refseq_old_locus_tag" "http://identifiers.org/refseq_old_locus_tag/S_0338"] ["refseq_orf_id" "http://identifiers.org/refseq_orf_id/sll1027"] ["refseq_synonym" "http://identifiers.org/refseq_synonym/CTE-II"] ["sabiork" "http://identifiers.org/sabiork/9859"] ["unit" "https://identifiers.org/unit/UO:0000040"] ["unknown" "http://identifiers.org/unknown/10.1074/jbc.C000664200"]
I just went through Biomodels, BiGG and some models of our group to find identifiers.org URLs that are not using valid namespaces.
Labeled as "feature" because this aims to repair broken data, not annotate and curate valid data.
Here is the list of those where it is obvious how to repair them:
For those I have no clue: