2D-PAGE protein http://2dbase.techfak.uni-bielefeld.de/ http://2dbase.techfak.uni-bielefeld.de/cgi-bin/2d/2d.cgi?ac=$id P39172 1 urn:miriam:2d-page.protein ^([A-N,R-Z][0-9][A-Z][A-Z, 0-9][A-Z, 0-9][0-9])|([O,P,Q][0-9][A-Z, 0-9][A-Z, 0-9][A-Z, 0-9][0-9])$ 2D-PAGE protein 3DMET http://www.3dmet.dna.affrc.go.jp/ http://www.3dmet.dna.affrc.go.jp/cgi/show_data.php?acc=$id B00162 metabolite 1 urn:miriam:3dmet ^B\d{5}$ 3DMET ABS http://genome.crg.es/datasets/abs2005/ http://genome.crg.es/datasets/abs2005/entries/$id.html A0014 1 urn:miriam:abs ^A\d+$ ABS Aceview Worm http://www.ncbi.nlm.nih.gov/IEB/Research/Acembly/index.html?worm http://www.ncbi.nlm.nih.gov/IEB/Research/Acembly/av.cgi?db=worm&c=Gene&l=$id aap-1 1 urn:miriam:aceview.worm ^[a-z0-9-]+$ Aceview Worm Aclame http://aclame.ulb.ac.be/ http://aclame.ulb.ac.be/perl/Aclame/Genomes/mge_view.cgi?view=info&id=$id mge:2 gene 1 urn:miriam:aclame ^mge:\d+$ Aclame Affy X http://www.affymetrix.com/ http://www.ensembl.org/common/Lucene/Results?species=all;feature=OligoProbe;q=$id 1851_s_at probe 0 X .+_at AGD http://agd.vital-it.ch/ http://agd.vital-it.ch/Ashbya_gossypii/geneview?gene=$id AGR144C 1 urn:miriam:agd ^AGR\w+$ AGD Agilent Ag A_24_P98555 probe 0 Ag A_\d+_.+ Allergome http://www.allergome.org/ http://www.allergome.org/script/dettaglio.php?id_molecule=$id 1948 1 urn:miriam:allergome ^\d+$ Allergome AmoebaDB http://amoebadb.org/amoeba/ http://amoebadb.org/amoeba/showRecord.do?name=GeneRecordClasses.GeneRecordClass&source_id=$id EDI_244000 1 urn:miriam:amoebadb ^EDI_\d+$ AmoebaDB Anatomical Therapeutic Chemical http://www.whocc.no/atc_ddd_index/ http://www.whocc.no/atc_ddd_index/?code=$id A10BA02 metabolite 1 urn:miriam:atc ^\w(\d+)?(\w{1,2})?(\d+)?$ Anatomical Therapeutic Chemical Anatomical Therapeutic Chemical Vetinary http://www.whocc.no/atcvet/atcvet_index/ http://www.whocc.no/atcvet/atcvet_index/?code=$id QJ51RV02 1 urn:miriam:atcvet ^Q[A-Z0-9]+$ Anatomical Therapeutic Chemical Vetinary Animal TFDB Family http://www.bioguo.org/AnimalTFDB/family_index.php http://www.bioguo.org/AnimalTFDB/family.php?fam=$id CUT 1 urn:miriam:atfdb.family ^\w+$ Animal TFDB Family AntWeb http://www.antweb.org/ http://www.antweb.org/specimen.do?name=$id casent0106247 1 urn:miriam:antweb ^casent\d+$ AntWeb APD http://aps.unmc.edu/AP/ http://aps.unmc.edu/AP/database/query_output.php?ID=$id 01001 1 urn:miriam:apd ^\d{5}$ APD ArachnoServer http://www.arachnoserver.org/ http://www.arachnoserver.org/toxincard.html?id=$id AS000060 1 urn:miriam:arachnoserver ^AS\d{6}$ ArachnoServer ArrayExpress http://www.ebi.ac.uk/arrayexpress/ http://www.ebi.ac.uk/arrayexpress/experiments/$id E-MEXP-1712 experiment 1 urn:miriam:arrayexpress ^[AEP]-\w{4}-\d+$ ArrayExpress ArrayExpress Platform http://www.ebi.ac.uk/arrayexpress/ http://www.ebi.ac.uk/arrayexpress/arrays/$id A-GEOD-50 1 urn:miriam:arrayexpress.platform ^[AEP]-\w{4}-\d+$ ArrayExpress Platform arXiv http://arxiv.org/ http://arxiv.org/abs/$id 0807.4956v1 publication 1 urn:miriam:arxiv ^(\w+(\-\w+)?(\.\w+)?/)?\d{4,7}(\.\d{4}(v\d+)?)?$ arXiv ASAP http://asap.ahabs.wisc.edu/asap/home.php http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=$id ABE-0009634 1 urn:miriam:asap ^[A-Za-z0-9-]+$ ASAP ATCC http://www.atcc.org/ http://www.atcc.org/SearchCatalogs/Linkin?id=$id 11303 1 urn:miriam:atcc ^\d+$ ATCC BDGP EST http://www.ncbi.nlm.nih.gov/dbEST/index.html http://www.ncbi.nlm.nih.gov/nucest/$id EY223054.1 1 urn:miriam:bdgp.est ^\w+(\.)?(\d+)?$ BDGP EST BDGP insertion DB http://flypush.imgen.bcm.tmc.edu/pscreen/ http://flypush.imgen.bcm.tmc.edu/pscreen/details.php?line=$id KG09531 1 urn:miriam:BDGP.insertion ^\w+$ BDGP insertion DB BeetleBase http://beetlebase.org/ http://beetlebase.org/cgi-bin/gbrowse/BeetleBase3.gff3/?name=$id TC010103 1 urn:miriam:beetlebase ^TC\d+$ BeetleBase BIND http://www.bind.ca/ http://www.bind.ca/Action?identifier=bindid&idsearch=$id pathway 1 urn:miriam:bind ^\d+$ BIND BindingDB http://www.bindingdb.org/bind/index.jsp http://www.bindingdb.org/bind/chemsearch/marvin/MolStructure.jsp?monomerid=$id 22360 1 urn:miriam:bindingDB ^\d+$ BindingDB BioCatalogue http://www.biocatalogue.org/ http://www.biocatalogue.org/services/$id 614 1 urn:miriam:biocatalogue.service ^\d+$ BioCatalogue BioCyc Bc http://biocyc.org http://biocyc.org/getid?id=$id ECOLI:CYT-D-UBIOX-CPLX 1 urn:miriam:biocyc ^\w+\:[A-Za-z0-9-]+$ BioCyc BioGrid Bg http://thebiogrid.org/ http://thebiogrid.org/$id 31623 probe 1 urn:miriam:biogrid ^\d+$ BioGRID BioModels Database http://www.ebi.ac.uk/biomodels/ http://www.ebi.ac.uk/biomodels-main/$id BIOMD0000000048 pathway 1 urn:miriam:biomodels.db ^((BIOMD|MODEL)\d{10})|(BMID\d{12})$ BioModels Database BioNumbers http://www.bionumbers.hms.harvard.edu/search.aspx http://www.bionumbers.hms.harvard.edu/bionumber.aspx?s=y&id=$id&ver=1 104674 experiment 1 urn:miriam:bionumbers ^\d+$ BioNumbers BioPortal http://bioportal.bioontology.org/ http://bioportal.bioontology.org/ontologies/$id 1046 1 urn:miriam:bioportal ^\d+$ BioPortal BioProject http://trace.ddbj.nig.ac.jp/bioproject/ http://trace.ddbj.nig.ac.jp/BPSearch/bioproject?acc=$id PRJDB3 1 urn:miriam:bioproject ^PRJDB\d+$ BioProject BioSample http://www.ebi.ac.uk/biosamples/ http://www.ebi.ac.uk/biosamples/biosamples.html?query=$id SAMEG70402 1 urn:miriam:biosample ^\w{3}[NE](\w)?\d+$ BioSample BioSystems http://www.ncbi.nlm.nih.gov/biosystems/ http://www.ncbi.nlm.nih.gov/biosystems/$id 001 pathway 1 urn:miriam:biosystems ^\d+$ BioSystems BitterDB Compound http://bitterdb.agri.huji.ac.il/bitterdb/ http://bitterdb.agri.huji.ac.il/bitterdb/compound.php?id=$id 46 1 urn:miriam:bitterdb.cpd ^\d+$ BitterDB Compound BitterDB Receptor http://bitterdb.agri.huji.ac.il/bitterdb/ http://bitterdb.agri.huji.ac.il/bitterdb/Receptor.php?id=$id 1 1 urn:miriam:bitterdb.rec ^\d+$ BitterDB Receptor BOLD Taxonomy http://www.boldsystems.org/ http://www.boldsystems.org/views/taxbrowser.php?taxid=$id 27267 1 urn:miriam:bold.taxonomy ^\d+$ BOLD Taxonomy BRENDA http://www.brenda-enzymes.org/ http://www.brenda-enzymes.org/php/result_flat.php4?ecno=$id 1.1.1.1 1 urn:miriam:brenda ^((\d+\.-\.-\.-)|(\d+\.\d+\.-\.-)|(\d+\.\d+\.\d+\.-)|(\d+\.\d+\.\d+\.\d+))$ BRENDA Brenda Tissue Ontology http://www.ebi.ac.uk/ontology-lookup/ http://www.ebi.ac.uk/ontology-lookup/?termId=$id BTO:0000146 ontology 1 urn:miriam:obo.bto ^BTO:\d{7}$ Brenda Tissue Ontology BYKdb http://bykdb.ibcp.fr/BYKdb/ http://bykdb.ibcp.fr/data/html/$id.html C1CBD1 1 urn:miriam:bykdb ^\w+$ BYKdb CABRI http://www.cabri.org/ http://www.cabri.org/CABRI/srs-bin/wgetz?-e+-page+EntryPage+[$id] dsmz_mutz-id:ACC 291 1 urn:miriam:cabri ^([A-Za-z]+)?(\_)?([A-Za-z-]+)\:([A-Za-z0-9 ]+)$ CABRI Canadian Drug Product Database http://webprod3.hc-sc.gc.ca/dpd-bdpp/index-eng.jsp http://webprod3.hc-sc.gc.ca/dpd-bdpp/info.do?lang=eng&code=$id 63250 1 urn:miriam:cdpd ^\d+$ Canadian Drug Product Database Candida Genome Database http://www.candidagenome.org/ http://www.candidagenome.org/cgi-bin/locus.pl?dbid=$id CAL0003079 1 urn:miriam:cgd ^CAL\d{7}$ Candida Genome Database CAS Ca http://commonchemistry.org http://commonchemistry.org/ChemicalDetail.aspx?ref=$id 50-00-0 metabolite 1 urn:miriam:cas ^\d{1,7}\-\d{2}\-\d$ CAS CATH domain http://www.cathdb.info/ http://www.cathdb.info/domain/$id 1cukA01 1 urn:miriam:cath.domain ^\w+$ CATH domain CATH superfamily http://www.cathdb.info/ http://www.cathdb.info/cathnode/$id 1.10.10.200 1 urn:miriam:cath.superfamily ^\d+(\.\d+(\.\d+(\.\d+)?)?)?$ CATH superfamily CAZy http://www.cazy.org/ http://www.cazy.org/$id.html GT10 1 urn:miriam:cazy ^GT\d+$ CAZy CCDS Cc http://www.ncbi.nlm.nih.gov/CCDS/CcdsBrowse.cgi?REQUEST=ALLFIELDS&DATA=$id CCDS43989 probe 0 Cc Cell Cycle Ontology http://www.ebi.ac.uk/ontology-lookup/ http://www.ebi.ac.uk/ontology-lookup/?termId=$id CCO:P0000023 1 urn:miriam:cco ^CCO\:\w+$ Cell Cycle Ontology Cell Image Library http://cellimagelibrary.org/ http://cellimagelibrary.org/images/$id 24801 1 urn:miriam:cellimage ^\d+$ Cell Image Library Cell Ontology http://www.ebi.ac.uk/ontology-lookup/ http://www.ebi.ac.uk/ontology-lookup/?termId=$id CL:0000232 ontology 1 urn:miriam:obo.clo ^CL:\d{7}$ Cell Type Ontology CGSC Strain http://cgsc.biology.yale.edu/index.php http://cgsc.biology.yale.edu/Strain.php?ID=$id 11042 1 urn:miriam:cgsc ^\d+$ CGSC Strain CharProt http://www.jcvi.org/charprotdb http://www.jcvi.org/charprotdb/index.cgi/view/$id CH_001923 1 urn:miriam:charprot ^CH_\d+$ CharProt ChEBI Ce http://www.ebi.ac.uk/chebi/ http://www.ebi.ac.uk/chebi/searchId.do?chebiId=$id CHEBI:36927 metabolite 1 urn:miriam:obo.chebi ^CHEBI:\d+$ ChEBI ChemBank http://chembank.broadinstitute.org/ http://chembank.broadinstitute.org/chemistry/viewMolecule.htm?cbid=$id 1000000 1 urn:miriam:chembank ^\d+$ ChemBank ChEMBL compound https://www.ebi.ac.uk/chembldb/ https://www.ebi.ac.uk/chembldb/index.php/compound/inspect/$id CHEMBL308052 metabolite 1 urn:miriam:chembl.compound ^CHEMBL\d+$ ChEMBL compound ChEMBL target https://www.ebi.ac.uk/chembldb/ https://www.ebi.ac.uk/chembldb/index.php/target/inspect/$id CHEMBL3467 protein 1 urn:miriam:chembl.target ^CHEMBL\d+$ ChEMBL target ChemDB http://cdb.ics.uci.edu/ http://cdb.ics.uci.edu/cgibin/ChemicalDetailWeb.psp?chemical_id=$id 3966782 1 urn:miriam:chemdb ^\d+$ ChemDB Chemical Component Dictionary http://www.ebi.ac.uk/pdbe-srv/pdbechem/ http://www.ebi.ac.uk/pdbe-srv/pdbechem/chemicalCompound/show/$id AB0 ontology 1 urn:miriam:pdb-ccd ^\w{3}$ Chemical Component Dictionary ChemIDplus http://chem.sis.nlm.nih.gov/chemidplus/chemidheavy.jsp http://chem.sis.nlm.nih.gov/chemidplus/direct.jsp?regno=$id 000057272 metabolite 1 urn:miriam:chemidplus ^\d+$ ChemIDplus Chemspider Cs http://www.chemspider.com/ http://www.chemspider.com/Chemical-Structure.$id.html 56586 metabolite 1 urn:miriam:chemspider ^\d+$ ChemSpider Cint C probe 0 C ClinicalTrials.gov http://clinicaltrials.gov/ http://clinicaltrials.gov/ct2/show/$id NCT00222573 experiment 1 ClinicalTrials.gov http://clinicaltrials.gov/ http://clinicaltrials.gov/ct2/show/$id NCT00222573 1 urn:miriam:clinicaltrials ^NCT\d{8}$ ClinicalTrials.gov CluSTr http://www.ebi.ac.uk/clustr/ http://www.ebi.ac.uk/clustr-srv/CCluster?interpro=yes&cluster_varid=$id HUMAN:55140:308.6 protein 1 urn:miriam:clustr ^[0-9A-Za-z]+:\d+:\d{1,5}(\.\d)?$ CluSTr CMR Gene http://cmr.jcvi.org/cgi-bin/CMR/CmrHomePage.cgi http://cmr.jcvi.org/cgi-bin/CMR/shared/GenePage.cgi?locus=$id NTL15EF2281 1 urn:miriam:cmr.gene ^\w+(\_)?\w+$ CMR Gene CodeLink Ge GE86325 probe 0 Ge COGs http://www.ncbi.nlm.nih.gov/COG/ http://www.ncbi.nlm.nih.gov/COG/grace/wiew.cgi?$id COG0001 1 urn:miriam:cogs ^COG\d+$ COGs COMBINE specifications http://co.mbine.org/standards/ http://co.mbine.org/specifications/$id sbgn.er.level-1.version-1.2 1 urn:miriam:combine.specifications ^\w+(\-|\.|\w)*$ COMBINE specifications Compulyeast http://compluyeast2dpage.dacya.ucm.es/ http://compluyeast2dpage.dacya.ucm.es/cgi-bin/2d/2d.cgi?ac=$id O08709 1 urn:miriam:compulyeast ^([A-N,R-Z][0-9][A-Z][A-Z, 0-9][A-Z, 0-9][0-9])|([O,P,Q][0-9][A-Z, 0-9][A-Z, 0-9][A-Z, 0-9][0-9])$ Compulyeast Conoserver http://www.conoserver.org/ http://www.conoserver.org/?page=card&table=protein&id=$id 2639 1 urn:miriam:conoserver ^\d+$ Conoserver Conserved Domain Database http://www.ncbi.nlm.nih.gov/sites/entrez?db=cdd http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=$id cd00400 protein 1 urn:miriam:cdd ^cd\d{5}$ Conserved Domain Database CryptoDB http://cryptodb.org/cryptodb/ http://cryptodb.org/cryptodb/showRecord.do?name=GeneRecordClasses.GeneRecordClass&source_id=$id cgd7_230 1 urn:miriam:cryptodb ^\w+ CryptoDB CSA http://www.ebi.ac.uk/thornton-srv/databases/CSA/ http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/CSA/CSA_Site_Wrapper.pl?pdb=$id 1a05 1 urn:miriam:csa ^[0-9][A-Za-z0-9]{3}$ CSA CTD Chemical http://ctdbase.org/ http://ctdbase.org/detail.go?type=chem&acc=$id D001151 metabolite 1 urn:miriam:ctd.chemical ^D\d+$ CTD Chemical CTD Disease http://ctdbase.org/ http://ctdbase.org/detail.go?type=disease&db=MESH&acc=$id D053716 ontology 1 urn:miriam:ctd.disease ^D\d+$ CTD Disease CTD Gene http://ctdbase.org/ http://ctdbase.org/basicQuery.go?bqCat=gene&bq=$id 101 gene 1 urn:miriam:ctd.gene ^\d+$ CTD Gene CutDB http://cutdb.burnham.org http://cutdb.burnham.org/relation/show/$id 25782 1 urn:miriam:pmap.cutdb ^\d+$ CutDB CYGD http://mips.gsf.de/genre/proj/yeast/ http://mips.gsf.de/genre/proj/yeast/singleGeneReport.html?entry=$id YFL039c 1 urn:miriam:cygd ^\w{2,3}\d{2,4}(\w)?$ CYGD Database of Interacting Proteins http://dip.doe-mbi.ucla.edu/ http://dip.doe-mbi.ucla.edu/dip/DIPview.cgi?ID=$id DIP-743N protein 1 urn:miriam:dip ^DIP[\:\-]\d{3}[EN]$ Database of Interacting Proteins Database of Quantitative Cellular Signaling: Model http://doqcs.ncbs.res.in/ http://doqcs.ncbs.res.in/template.php?&y=accessiondetails&an=$id 57 pathway 1 urn:miriam:doqcs.model ^\d+$ Database of Quantitative Cellular Signaling: Model Database of Quantitative Cellular Signaling: Pathway http://doqcs.ncbs.res.in/ http://doqcs.ncbs.res.in/template.php?&y=pathwaydetails&pn=$id 131 pathway 1 urn:miriam:doqcs.pathway ^\d+$ Database of Quantitative Cellular Signaling: Pathway dbEST http://www.ncbi.nlm.nih.gov/nucest http://www.ncbi.nlm.nih.gov/nucest/$id BP100000 1 urn:miriam:dbest ^BP\d+$ dbEST DBG2 Introns http://webapps2.ucalgary.ca/~groupii/ http://webapps2.ucalgary.ca/~groupii/cgi-bin/intron.cgi?name=$id Cu.me.I1 1 urn:miriam:dbg2introns ^\w{1,2}\.(\w{1,2}\.)?[A-Za-z0-9]+$ DBG2 Introns dbProbe http://www.ncbi.nlm.nih.gov/sites/entrez?db=probe http://www.ncbi.nlm.nih.gov/projects/genome/probe/reports/probereport.cgi?uid=$id 1000000 1 urn:miriam:dbprobe ^\d+$ dbProbe dbSNP Sn gene 1 Sn dbSNP http://www.ncbi.nlm.nih.gov/sites/entrez?db=snp http://www.ncbi.nlm.nih.gov/projects/SNP/snp_ref.cgi?rs=$id 121909098 1 urn:miriam:dbsnp ^\d+$ dbSNP Dictybase EST http://dictybase.org/ http://dictybase.org/db/cgi-bin/feature_page.pl?primary_id=$id DDB0016567 1 urn:miriam:dictybase.est ^DDB\d+$ Dictybase EST Dictybase Gene http://dictybase.org/ http://dictybase.org/gene/$id DDB_G0267522 1 urn:miriam:dictybase.gene ^DDB_G\d+$ Dictybase Gene DisProt http://www.disprot.org/ http://www.disprot.org/protein.php?id=$id DP00001 1 urn:miriam:disprot ^DP\d{5}$ DisProt DOI http://www.doi.org/ http://dx.doi.org/$id 10.1038/nbt1156 publication 1 urn:miriam:doi ^(doi\:)?\d{2}\.\d{4}/.*$ DOI DPV http://www.dpvweb.net/ http://www.dpvweb.net/dpv/showdpv.php?dpvno=$id 100 1 urn:miriam:dpv ^\d+$ DPV DragonDB Allele http://www.antirrhinum.net/ http://antirrhinum.net/cgi-bin/ace/generic/tree/DragonDB?name=$id&class=Allele cho 1 urn:miriam:dragondb.allele ^\w+$ DragonDB Allele DragonDB DNA http://www.antirrhinum.net/ http://antirrhinum.net/cgi-bin/ace/generic/tree/DragonDB?name=$id;class=DNA 3hB06 1 urn:miriam:dragondb.dna ^\d\w+$ DragonDB DNA DragonDB Locus http://www.antirrhinum.net/ http://antirrhinum.net/cgi-bin/ace/generic/tree/DragonDB?name=$id&class=Locus DEF 1 urn:miriam:dragondb.locus ^\w+$ DragonDB Locus DragonDB Protein http://www.antirrhinum.net/ http://antirrhinum.net/cgi-bin/ace/generic/tree/DragonDB?name=$id;class=Peptide AMDEFA 1 urn:miriam:dragondb.protein ^\w+$ DragonDB Protein DrugBank http://www.drugbank.ca/ http://www.drugbank.ca/drugs/$id DB00001 metabolite 1 urn:miriam:drugbank ^DB\d{5}$ DrugBank EchoBASE http://www.york.ac.uk/ http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=$id EB0170 1 urn:miriam:echobase ^EB\d+$ EchoBASE EcoGene http://ecogene.org/ http://ecogene.org/geneInfo.php?eg_id=$id EG10173 1 urn:miriam:ecogene ^EG\d+$ EcoGene Ecoli Ec gene Escherichia coli 1 Ec EDAM Ontology http://www.ebi.ac.uk/ontology-lookup/ http://www.ebi.ac.uk/ontology-lookup/?termId=$id EDAM_data:1664 1 urn:miriam:edam ^EDAM_data\:\d{4}$ EDAM Ontology eggNOG http://eggnog.embl.de/version_3.0/ http://eggnog.embl.de/version_3.0/cgi/search.py?search_term_0=$id veNOG12876 1 urn:miriam:eggnog ^\w+$ eggNOG ELM http://elm.eu.org/ http://elm.eu.org/elms/elmPages/$id.html CLV_MEL_PAP_1 1 urn:miriam:elm ^[A-Za-z_0-9]+$ ELM EMBL Em http://www.ebi.ac.uk/embl/ http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-page+EntryPage+-e+[EMBL:$id]+-view+EmblEntry X58356 gene 1 urn:miriam:insdc ^\w+(\_)?\d+(\.\d+)?$ Nucleotide Sequence Database Ensembl En http://www.ensembl.org/ http://www.ensembl.org/id/$id ENSG00000139618 gene 1 urn:miriam:ensembl ^ENS[A-Z]*[FPTG]\d{11}$ Ensembl Ensembl B. subtilis EnBs http://www.ensembl.org http://bacteria.ensembl.org/Bacillus/B_subtilis/Gene/Summary?g=$id EBBACG00000000013 gene Bos taurus 1 EnBs EBBACG\d{11} Ensembl Bacteria http://bacteria.ensembl.org/ http://bacteria.ensembl.org/id/$id EBESCT00000015660 1 urn:miriam:ensembl.bacteria ^EB\w+$ Ensembl Bacteria Ensembl C. elegans EnCe http://www.ensembl.org http://www.ensembl.org/Caenorhabditis_elegans/Gene/Summary?g=$id Y42H9B.1 gene Caenorhabditis elegans 1 EnCe Ensembl Chicken EnGg http://www.ensembl.org http://www.ensembl.org/Gallus_gallus/Gene/Summary?g=$id ENSGALG00000021736 gene Gallus gallus 1 EnGg ENSGALG\d{11} Ensembl Chimp EnPt http://www.ensembl.org http://www.ensembl.org/Pan_troglodytes/Gene/Summary?g=$id ENSPTRG00000036034 gene Pan troglodytes 1 EnPt ENSPTRG\d{11} Ensembl Cow EnBt http://www.ensembl.org http://www.ensembl.org/Bos_taurus/Gene/Summary?g=$id ENSBTAG00000043548 gene Bos taurus 1 EnBt ENSBTAG\d{11} Ensembl Dog EnCf http://www.ensembl.org http://www.ensembl.org/Canis_familiaris/Gene/Summary?g=$id ENSCAFG00000025860 gene Canis familiaris 1 EnCf ENSCAFG\d{11} Ensembl E. coli EnEc http://www.ensembl.org http://bacteria.ensembl.org/Escherichia_Shigella/E_coli_K12/Gene/Summary?g=$id EBESCG00000000010 gene Escherichia coli 1 EnEc EBESCG\d{11} Ensembl Fruitfly EnDm http://www.ensembl.org http://www.ensembl.org/Drosophila_melanogaster/Gene/Summary?g=$id FBgn0032956 gene Drosophila melanogaster 1 EnDm FBgn\d{7} Ensembl Fungi http://fungi.ensembl.org/ http://fungi.ensembl.org/id/$id CADAFLAT00006211 1 urn:miriam:ensembl.fungi ^\w+$ Ensembl Fungi Ensembl Horse EnQc http://www.ensembl.org http://www.ensembl.org/Equus_caballus/Gene/Summary?g=$id ENSECAG00000026160 gene Equus caballus 1 EnQc ENSECAG\d{11} Ensembl Human EnHs http://www.ensembl.org http://www.ensembl.org/Homo_sapiens/Gene/Summary?g=$id ENSG00000139618 gene Homo sapiens 1 EnHs ENSG\d{11} Ensembl M. tuberculosis EnMx http://www.ensembl.org http://bacteria.ensembl.org/Mycobacterium/M_tuberculosis_H37Rv/Gene/Summary?g=$id EBMYCG00000003122 gene Mycobacterium tuberculosis 1 EnMx EBMYCG\d{11} Ensembl Metazoa http://metazoa.ensembl.org/ http://metazoa.ensembl.org/id/$id FBtr0084214 1 urn:miriam:ensembl.metazoa ^\w+(\.)?\d+$ Ensembl Metazoa Ensembl Mosquito EnAg http://www.ensembl.org http://www.ensembl.org/Anopheles_gambiae/Gene/Summary?_q=$id AGAP006864 gene Anopheles gambiae 1 EnAg AGAP\d{6} Ensembl Mouse EnMm http://www.ensembl.org http://www.ensembl.org/Mus_musculus/Gene/Summary?g=$id ENSMUSG00000017167 gene Mus musculus 1 EnMm ENSMUSG\d{11} Ensembl Pig EnSs http://www.ensembl.org http://www.ensembl.org/Sus_scrofa/Gene/Summary?g=$id ENSSSCG00000004244 gene Sus scrofa 1 EnSs Ensembl Plants EP http://plants.ensembl.org/ http://plants.ensembl.org/id/$id AT1G73965 gene 1 urn:miriam:ensembl.plant ^\w+$ Ensembl Plants Ensembl Protists http://protists.ensembl.org http://protists.ensembl.org/id/$id PFC0120w gene 1 urn:miriam:ensembl.protist ^\w+$ Ensembl Protists Ensembl Rat EnRn http://www.ensembl.org http://www.ensembl.org/Rattus_norvegicus/Gene/Summary?g=$id ENSRNOG00000016648 gene Rattus norvegicus 1 EnRn ENSRNOG\d{11} Ensembl Xenopus EnXt http://www.ensembl.org http://www.ensembl.org/Xenopus_tropicalis/Gene/Summary?g=$id ENSXETG00000029448 gene Xenopus tropicalis 1 EnXt ENSXETG\d{11} Ensembl Yeast EnSc http://www.ensembl.org http://www.ensembl.org/Saccharomyces_cerevisiae/Gene/Summary?g=$id YGR147C gene Saccharomyces cerevisiae 1 EnSc Y[A-Z][RL]\d{3}[WC](?:\-[A-Z])? Ensembl Zebrafish EnDr http://www.ensembl.org http://www.ensembl.org/Danio_rerio/Gene/Summary?g=$id ENSDARG00000024771 gene Danio rerio 1 EnDr ENSDARG\d{11} Entrez Gene L http://www.ncbi.nlm.nih.gov/gene http://www.ncbi.nlm.nih.gov/gene/$id 100010 gene 1 urn:miriam:ncbigene ^\d+$ NCBI Gene Enzyme Nomenclature E http://www.ebi.ac.uk/intenz/ http://www.ebi.ac.uk/intenz/query?cmd=SearchEC&ec=$id 1.1.1.1 gene 1 urn:miriam:ec-code ^\d+\.-\.-\.-|\d+\.\d+\.-\.-|\d+\.\d+\.\d+\.-|\d+\.\d+\.\d+\.(n)?\d+$ Enzyme Nomenclature Evidence Code http://www.ebi.ac.uk/ontology-lookup/ http://www.ebi.ac.uk/ontology-lookup/?termId=$id ECO:0000006 ontology 1 urn:miriam:obo.eco ECO:\d{7}$ Evidence Code Ontology FlyBase F http://flybase.org/ http://flybase.org/reports/$id.html FBgn0011293 gene Drosophila melanogaster 1 urn:miriam:flybase ^FB\w{2}\d{7}$ FlyBase Flystock http://flystocks.bio.indiana.edu/bloomhome.htm http://flystocks.bio.indiana.edu/Reports/$id.html 33159 1 urn:miriam:flystock ^\d+$ Flystock FMA http://www.ebi.ac.uk/ontology-lookup/ http://www.ebi.ac.uk/ontology-lookup/?termId=$id FMA:67112 ontology 1 urn:miriam:obo.fma ^FMA:\d+$ FMA GABI http://gabi.rzpd.de/ http://gabi.rzpd.de/database/cgi-bin/GreenCards.pl.cgi?BioObjectId=$id&Mode=ShowBioObject 2679240 1 urn:miriam:gabi ^\w+$ GABI Genatlas http://genatlas.medecine.univ-paris5.fr/ http://genatlas.medecine.univ-paris5.fr/fiche.php?symbol=$id HBB 1 urn:miriam:genatlas ^\w+$ Genatlas GenBank G probe 0 G (\w\d{5})|(\w{2}\d{6})|(\w{3}\d{5}) Gene Wiki Gw http://en.wikipedia.org/wiki/Portal:Gene_Wiki http://plugins.biogps.org/cgi-bin/wp.cgi?id=$id 1017 gene 0 Gw \d+ GeneCards http://www.genecards.org/ http://www.genecards.org/cgi-bin/carddisp.pl?gene=$id ABL1 1 urn:miriam:genecards ^\w+$ GeneCards GeneDB http://www.genedb.org/ http://www.genedb.org/gene/$id Cj1536c gene 1 urn:miriam:genedb ^[\w\d\.-]*$ GeneDB GeneFarm http://urgi.versailles.inra.fr/Genefarm/ http://urgi.versailles.inra.fr/Genefarm/Gene/display_gene.htpl?GENE_ID=$id 4892 1 urn:miriam:genefarm ^\d+$ GeneFarm GeneOntology T http://www.ebi.ac.uk/QuickGO/ http://www.ebi.ac.uk/QuickGO/GTerm?id=$id GO:0006915 probe 1 urn:miriam:obo.go ^GO:\d{7}$ Gene Ontology GeneTree http://www.ensembl.org/ http://www.ensembl.org/Multi/GeneTree/Image?db=core;gt=$id ENSGT00550000074763 1 urn:miriam:genetree ^ENSGT\d+$ GeneTree GenPept http://www.ncbi.nlm.nih.gov/protein http://www.ncbi.nlm.nih.gov/protein/$id?report=genpept CAA71118.1 1 urn:miriam:genpept ^\w{3}\d{5}(\.\d+)?$ GenPept GEO http://www.ncbi.nlm.nih.gov/geo/ http://www.ncbi.nlm.nih.gov/sites/GDSbrowser?acc=$id GDS1234 experiment 1 urn:miriam:geo ^GDS\d+$ GEO GiardiaDB http://giardiadb.org/giardiadb/ http://giardiadb.org/giardiadb/showRecord.do?name=GeneRecordClasses.GeneRecordClass&source_id=$id GL50803_102438 1 urn:miriam:giardiadb ^\w+$ GiardiaDB GlycomeDB http://www.glycome-db.org/showMenu.action?major=database http://www.glycome-db.org/database/showStructure.action?glycomeId=$id 1 metabolite 1 urn:miriam:glycomedb ^\d+$ GlycomeDB GOA http://www.ebi.ac.uk/GOA/ http://www.ebi.ac.uk/QuickGO/GProtein?ac=$id P12345 1 urn:miriam:goa ^([A-N,R-Z][0-9][A-Z][A-Z, 0-9][A-Z, 0-9][0-9])|([O,P,Q][0-9][A-Z, 0-9][A-Z, 0-9][A-Z, 0-9][0-9])$ GOA Golm Metabolome Database http://gmd.mpimp-golm.mpg.de/ http://gmd.mpimp-golm.mpg.de/Metabolites/$id.aspx 68513255-fc44-4041-bc4b-4fd2fae7541d 1 urn:miriam:gmd ^[A-Za-z-0-9-]+$ Golm Metabolome Database GPCRDB http://www.gpcr.org/7tm/ http://www.gpcr.org/7tm/proteins/$id RL3R1_HUMAN 1 urn:miriam:gpcrdb ^\w+$ GPCRDB Gramene Arabidopsis EnAt http://www.gramene.org/ http://www.gramene.org/Arabidopsis_thaliana/Gene/Summary?g=$id ATMG01360-TAIR-G gene Arabidopsis thaliana 1 EnAt AT[\dCM]G\d{5}\-TAIR\-G Gramene genes http://www.gramene.org/ http://www.gramene.org/db/genes/search_gene?acc=$id GR:0080039 1 urn:miriam:gramene.gene ^GR\:\d+$ Gramene genes Gramene Genes DB Gg http://www.gramene.org/ http://www.gramene.org/db/genes/search_gene?acc=$id GR:0060184 gene 1 Gg GR:\d+ Gramene Literature Gl http://www.gramene.org/ http://www.gramene.org/db/literature/pub_search?ref_id=$id 6200 probe 0 Gl Gramene Maize EnZm http://www.ensembl.org http://www.maizesequence.org/Zea_mays/Gene/Summary?g=$id GRMZM2G174107 gene 1 EnZm Gramene Pathway Gp http://www.gramene.org/pathway AAH72400 probe 0 Gp Gramene protein http://www.gramene.org/ http://www.gramene.org/db/protein/protein_search?protein_id=$id 78073 1 urn:miriam:gramene.protein ^\d+$ Gramene protein Gramene QTL http://www.gramene.org/ http://www.gramene.org/db/qtl/qtl_display?qtl_accession_id=$id CQG5 1 urn:miriam:gramene.qtl ^\w+$ Gramene QTL Gramene Rice EnOj http://www.gramene.org/ http://www.gramene.org/Oryza_sativa/Gene/Summary?db=core;g=$id osa-MIR171a gene 1 EnOj Gramene Taxonomy http://www.gramene.org/ http://www.gramene.org/db/ontology/search?id=$id GR_tax:013681 1 urn:miriam:gramene.taxonomy ^GR\_tax\:\d+$ Gramene Taxonomy GreenGenes http://greengenes.lbl.gov/ http://greengenes.lbl.gov/cgi-bin/show_one_record_v2.pl?prokMSA_id=$id 100000 1 urn:miriam:greengenes ^\d+$ GreenGenes GRIN Plant Taxonomy http://www.ars-grin.gov/cgi-bin/npgs/html/index.pl?language=en http://www.ars-grin.gov/cgi-bin/npgs/html/taxon.pl?$id 19333 1 urn:miriam:grin.taxonomy ^\d+$ GRIN Plant Taxonomy H-InvDb Locus http://h-invitational.jp/hinv/ahg-db/index.jsp http://h-invitational.jp/hinv/spsoup/locus_view?hix_id=$id HIX0004394 1 urn:miriam:hinv.locus ^HIX\d{7}(\.\d+)?$ H-InvDb Locus H-InvDb Protein http://h-invitational.jp/hinv/ahg-db/index.jsp http://h-invitational.jp/hinv/protein/protein_view.cgi?hip_id=$id HIP000030660 1 urn:miriam:hinv.protein ^HIP\d{9}(\.\d+)?$ H-InvDb Protein H-InvDb Transcript http://h-invitational.jp/hinv/ahg-db/index.jsp http://h-invitational.jp/hinv/spsoup/transcript_view?hit_id=$id HIT000195363 1 urn:miriam:hinv.transcript ^HIT\d{9}(\.\d+)?$ H-InvDb Transcript HAMAP http://hamap.expasy.org/ http://hamap.expasy.org/unirule/$id MF_01400 1 urn:miriam:hamap ^MF_\d+$ HAMAP HCVDB http://euhcvdb.ibcp.fr/euHCVdb/ http://euhcvdb.ibcp.fr/euHCVdb/do/displayHCVEntry?primaryAC=$id M58335 1 urn:miriam:hcvdb ^M\d{5}$ HCVDB HGNC H http://www.genenames.org http://www.genenames.org/data/hgnc_data.php?match=$id DAPK1 gene Homo sapiens 1 H [A-Z][A-Z,0-9]+ HGNC Accession number Hac http://www.genenames.org http://www.genenames.org/data/hgnc_data.php?hgnc_id=$id HGNC:2674 gene Homo sapiens 1 urn:miriam:hgnc HGNC:\d{1,5} HGNC HMDB Ch http://www.hmdb.ca/ http://www.hmdb.ca/metabolites/$id HMDB00001 metabolite 1 urn:miriam:hmdb ^HMDB\d{5}$ HMDB HOGENOM http://pbil.univ-lyon1.fr/databases/hogenom/ http://pbil.univ-lyon1.fr/cgi-bin/view-tree.pl?db=HOGENOM5&query=$id HBG284870 1 urn:miriam:hogenom ^\w+$ HOGENOM HOMD Sequence Metainformation http://www.homd.org/index.php http://www.homd.org/modules.php?op=modload&name=GenomeList&file=index&link=detailinfo&seqid=$id SEQF1003 1 urn:miriam:homd.seq ^SEQF\d+$ HOMD Sequence Metainformation HOMD Taxonomy http://www.homd.org/index.php http://www.homd.org/modules.php?op=modload&name=HOMD&file=index&oraltaxonid=$id&view=dynamic 811 1 urn:miriam:homd.taxon ^\d+$ HOMD Taxonomy HomoloGene http://www.ncbi.nlm.nih.gov/homologene/ http://www.ncbi.nlm.nih.gov/homologene/$id 1000 1 urn:miriam:homologene ^\d+$ HomoloGene HOVERGEN http://pbil.univ-lyon1.fr/databases/hovergen.php http://pbil.univ-lyon1.fr/cgi-bin/view-tree.pl?query=$id&db=HOVERGEN HBG004341 gene 1 urn:miriam:hovergen ^HBG\d+$ HOVERGEN HPA http://www.proteinatlas.org/ http://www.proteinatlas.org/$id ENSG00000026508 1 urn:miriam:hpa ^ENSG\d{11}$ HPA HsGene Hs gene Homo sapiens 1 Hs HSSP http://swift.cmbi.kun.nl/swift/hssp/ ftp://ftp.embl-heidelberg.de/pub/databases/protein_extras/hssp/$id.hssp 102l 1 urn:miriam:hssp ^\w{4}$ HSSP HUGE http://www.kazusa.or.jp/huge/ http://www.kazusa.or.jp/tech-cgi/view_direct.cgi?id=$id KIAA0001 1 urn:miriam:huge ^KIAA\d{4}$ HUGE Human Disease Ontology http://bioportal.bioontology.org/ http://bioportal.bioontology.org/ontologies/1009/?p=terms&conceptid=$id DOID:11337 1 urn:miriam:obo.do ^DOID\:\d+$ Human Disease Ontology ICD http://www.who.int/classifications/icd/en/ http://apps.who.int/classifications/icd10/browse/2010/en#/$id C34 ontology 1 urn:miriam:icd ^[A-Z]\d+(\.[-\d+])?$ ICD Illumina Il ILMN_5668 probe 0 Il ILMN_\d+ IMEx http://disber.net/imexdrupal/ http://www.ebi.ac.uk/intact/imex/main.xhtml?query=$id IM-12080-80 pathway 1 urn:miriam:imex ^IM-\d+(-?)(\d+?)$ IMEx IMGT HLA http://www.ebi.ac.uk/imgt/hla/allele.html http://www.ebi.ac.uk/cgi-bin/imgt/hla/get_allele.cgi?$id A*01:01:01:01 1 urn:miriam:imgt.hla ^[A-Z0-9*:]+$ IMGT HLA IMGT LIGM http://www.ebi.ac.uk/imgt/ http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-id+1fmSL1g8Xvs+-e+[IMGTLIGM:'$id'] M94112 1 urn:miriam:imgt.ligm ^M\d+$ IMGT LIGM IntAct http://www.ebi.ac.uk/intact/ http://www.ebi.ac.uk/intact/pages/details/details.xhtml?interactionAc=$id EBI-2307691 pathway 1 urn:miriam:intact ^EBI\-[0-9]+$ IntAct Integrated Microbial Genomes Gene http://img.jgi.doe.gov/ http://img.jgi.doe.gov/cgi-bin/w/main.cgi?section=GeneDetail&gene_oid=$id 638309541 1 urn:miriam:img.gene ^\d+$ Integrated Microbial Genomes Gene Integrated Microbial Genomes Taxon http://img.jgi.doe.gov/ http://img.jgi.doe.gov/cgi-bin/w/main.cgi?section=TaxonDetail&taxon_oid=$id 648028003 1 urn:miriam:img.taxon ^\d+$ Integrated Microbial Genomes Taxon InterPro I http://www.ebi.ac.uk/interpro/ http://www.ebi.ac.uk/interpro/DisplayIproEntry?ac=$id IPR000100 protein 1 urn:miriam:interpro ^IPR\d{6}$ InterPro IPI Ip http://www.ebi.ac.uk/IPI http://www.ebi.ac.uk/cgi-bin/dbfetch?db=IPI&id=$id&format=default IPI00000001 probe 1 urn:miriam:ipi ^IPI\d{8}$ IPI IRD Segment Sequence http://www.fludb.org/ http://www.fludb.org/brc/fluSegmentDetails.do?ncbiGenomicAccession=$id CY077097 1 urn:miriam:ird.segment ^\w+(\_)?\d+(\.\d+)?$ IRD Segment Sequence iRefWeb http://wodaklab.org/iRefWeb/ http://wodaklab.org/iRefWeb/interaction/show/$id 617102 pathway 1 urn:miriam:irefweb ^\d+$ iRefWeb IRGSP Gene Ir http://rgp.dna.affrc.go.jp/IRGSP/ Os12g0561000 gene 1 Ir Os\d{2}g\d+ ISBN http://isbndb.com/ http://isbndb.com/search-all.html?kw=$id 9781584885658 publication 1 urn:miriam:isbn ^(ISBN)?(-13|-10)?[:]?[ ]?(\d{2,3}[ -]?)?\d{1,5}[ -]?\d{1,7}[ -]?\d{1,6}[ -]?(\d|X)$ ISBN ISFinder http://www-is.biotoul.fr/i http://www-is.biotoul.fr/index.html?is_special_name=$id ISA1083-2 1 urn:miriam:isfinder ^IS\w+(\-\d)?$ ISFinder ISSN http://catalog.loc.gov/webvoy.htm http://catalog.loc.gov/cgi-bin/Pwebrecon.cgi?Search_Arg=0745-4570$id&PID=le0kCQllk84KcxI3gMhUTowLMnn9H 0745-4570 1 urn:miriam:issn ^\d{4}\-\d{4}$ ISSN IUPHAR family http://www.iuphar-db.org/ http://www.iuphar-db.org/DATABASE/FamilyMenuForward?familyId=$id 78 1 urn:miriam:iuphar.family ^\d+$ IUPHAR family IUPHAR receptor http://www.iuphar-db.org/ http://www.iuphar-db.org/DATABASE/ObjectDisplayForward?objectId=$id 101 1 urn:miriam:iuphar.receptor ^\d+$ IUPHAR receptor Japan Chemical Substance Dictionary http://nikkajiweb.jst.go.jp/nikkaji_web/pages/top_e.jsp http://nikkajiweb.jst.go.jp/nikkaji_web/pages/top_e.jsp?CONTENT=syosai&SN=$id J55.713G 1 urn:miriam:jcsd ^J\d{1,3}(\.\d{3})?(\.\d{1,3})?[A-Za-z]$ Japan Chemical Substance Dictionary Japan Collection of Microorganisms http://www.jcm.riken.go.jp/ http://www.jcm.riken.go.jp/cgi-bin/jcm/jcm_number?JCM=$id 17254 1 urn:miriam:jcm ^\d+$ Japan Collection of Microorganisms JAX Mice http://jaxmice.jax.org/ http://jaxmice.jax.org/strain/$id.html 005012 1 urn:miriam:jaxmice ^\d+$ JAX Mice JWS http://jjj.biochem.sun.ac.za/index.html http://jjj.biochem.sun.ac.za/cgi-bin/processModelSelection.py?keytype=modelname&keyword=$id curien pathway 1 urn:miriam:jws ^\w+$ JWS Online Kegg Compound Ck http://www.genome.jp/kegg/ligand.html http://www.genome.jp/dbget-bin/www_bget?cpd:$id C12345 metabolite 1 urn:miriam:kegg.compound ^C\d+$ KEGG Compound KEGG Drug http://www.genome.jp/kegg/drug/ http://www.genome.jp/dbget-bin/www_bget?dr:$id D00123 metabolite 1 urn:miriam:kegg.drug ^D\d+$ KEGG Drug KEGG Genes Kg http://www.genome.jp/kegg/genes.html http://www.genome.jp/dbget-bin/www_bget?$id syn:ssr3451 gene 1 urn:miriam:kegg.genes ^\w+:[\w\d\.-]*$ KEGG Genes KEGG Genome http://www.genome.jp/kegg/catalog/org_list.html http://www.genome.jp/kegg-bin/show_organism?org=$id eco 1 urn:miriam:kegg.genome ^(T0\d+|\w{3,5})$ KEGG Genome KEGG Glycan http://www.genome.jp/kegg/glycan/ http://www.genome.jp/dbget-bin/www_bget?gl:$id G00123 metabolite 1 urn:miriam:kegg.glycan ^G\d+$ KEGG Glycan KEGG Metagenome http://www.genome.jp/kegg/catalog/org_list3.html http://www.genome.jp/kegg-bin/show_organism?org=$id T30002 1 urn:miriam:kegg.metagenome ^T3\d+$ KEGG Metagenome KEGG Orthology http://www.genome.jp/kegg/ko.html http://www.genome.jp/dbget-bin/www_bget?ko+$id K00001 protein 1 urn:miriam:kegg.orthology ^K\d+$ KEGG Orthology KEGG Pathway http://www.genome.jp/kegg/pathway.html http://www.genome.jp/dbget-bin/www_bget?pathway+$id hsa00620 pathway 1 urn:miriam:kegg.pathway ^\w{2,4}\d{5}$ KEGG Pathway KEGG Reaction Rk http://www.genome.jp/kegg/reaction/ http://www.genome.jp/dbget-bin/www_bget?rn:$id R00100 protein 1 urn:miriam:kegg.reaction ^R\d+$ KEGG Reaction KiSAO http://bioportal.bioontology.org/ http://bioportal.bioontology.org/ontologies/1410?p=terms&conceptid=kisao:$id KISAO_0000057 ontology 1 urn:miriam:biomodels.kisao ^KISAO_\d+$ KiSAO KnapSack http://kanaya.aist-nara.ac.jp/KNApSAcK/ http://kanaya.naist.jp/knapsack_jsp/information.jsp?word=$id C00000001 1 urn:miriam:knapsack ^C\d{8} KnapSack Ligand Expo http://ligand-depot.rutgers.edu/index.html http://ligand-depot.rutgers.edu/pyapps/ldHandler.py?formid=cc-index-search&target=$id&operation=ccid ABC protein 1 urn:miriam:ligandexpo ^(\w){3}$ Ligand Expo Ligand-Gated Ion Channel database http://www.ebi.ac.uk/compneur-srv/LGICdb/LGICdb.php http://www.ebi.ac.uk/compneur-srv/LGICdb/HTML/$id.php 5HT3Arano protein 1 urn:miriam:lgic ^\w+$ Ligand-Gated Ion Channel database LIPID MAPS http://www.lipidmaps.org http://www.lipidmaps.org/data/get_lm_lipids_dbgif.php?LM_ID=$id LMPR0102010012 metabolite 1 urn:miriam:lipidmaps ^LM(FA|GL|GP|SP|ST|PR|SL|PK)[0-9]{4}([0-9a-zA-Z]{4,6})?$ LIPID MAPS LipidBank http://lipidbank.jp/index.html http://lipidbank.jp/cgi-bin/detail.cgi?id=$id BBA0001 metabolite 1 urn:miriam:lipidbank ^\w+\d+$ LipidBank MACiE http://www.ebi.ac.uk/thornton-srv/databases/MACiE/index.html http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/MACiE/entry/getPage.pl?id=$id M0001 protein 1 urn:miriam:macie ^M\d{4}$ MACiE MaizeGDB Mg http://www.maizegdb.org/cgi-bin/displaylocusresults.cgi?term=$id acc1 gene Zea mays 1 Mg MaizeGDB Locus http://www.maizegdb.org/ http://www.maizegdb.org/cgi-bin/displaylocusrecord.cgi?id=$id 25011 1 urn:miriam:maizegdb.locus ^\d+$ MaizeGDB Locus MassBank http://msbi.ipb-halle.de/MassBank/ http://msbi.ipb-halle.de/MassBank/jsp/Dispatcher.jsp?type=disp&id=$id PB000166 1 urn:miriam:massbank ^[A-Z]{2}[A-Z0-9][0-9]{5}$ MassBank MatrixDB http://matrixdb.ibcp.fr/ http://matrixdb.ibcp.fr/cgi-bin/model/report/default?name=$id&class=Association P00747_P07355 pathway 1 urn:miriam:matrixdb.association ^([A-N,R-Z][0-9][A-Z][A-Z, 0-9][A-Z, 0-9][0-9])_.*|([O,P,Q][0-9][A-Z, 0-9][A-Z, 0-9][A-Z, 0-9][0-9]_.*)|(GAG_.*)|(MULT_.*)|(PFRAG_.*)|(LIP_.*)|(CAT_.*)$ MatrixDB Melanoma Molecular Map Project Biomaps http://www.mmmp.org/MMMP/public/biomap/listBiomap.mmmp http://www.mmmp.org/MMMP/public/biomap/viewBiomap.mmmp?id=$id 37 pathway 1 urn:miriam:mmmp:biomaps ^\d+$ Melanoma Molecular Map Project Biomaps MEROPS http://merops.sanger.ac.uk/index.htm http://merops.sanger.ac.uk/cgi-bin/merops.cgi?id=$id S01.001 protein 1 urn:miriam:merops ^S\d{2}\.\d{3}$ MEROPS MEROPS Family http://merops.sanger.ac.uk/index.htm http://merops.sanger.ac.uk/cgi-bin/famsum?family=$id S1 1 urn:miriam:merops.family ^\w+\d+$ MEROPS Family MeSH http://bioportal.bioontology.org/ http://bioportal.bioontology.org/ontologies/1351?p=terms&conceptid=$id D018377 1 urn:miriam:mesh ^[A-Za-z0-9]+$ MeSH METLIN http://masspec.scripps.edu/ http://metlin.scripps.edu/metabo_info.php?molid=$id 1455 1 urn:miriam:metlin ^\d{4}$ METLIN MGED Ontology http://bioportal.bioontology.org/ http://purl.bioontology.org/ontology/MO/$id ArrayGroup 1 urn:miriam:mo ^\w+$ MGED Ontology MGI M http://www.informatics.jax.org/ http://www.informatics.jax.org/marker/$id MGI:2442292 gene Mus musculus 1 urn:miriam:mgd ^MGI:\d+$ Mouse Genome Database Microbial Protein Interaction Database http://www.jcvi.org/mpidb/about.php http://www.jcvi.org/mpidb/experiment.php?interaction_id=$id 172 pathway 1 urn:miriam:mpid ^\d+$ Microbial Protein Interaction Database MicrosporidiaDB http://microsporidiadb.org/micro/ http://microsporidiadb.org/micro/showRecord.do?name=GeneRecordClasses.GeneRecordClass&source_id=$id ECU03_0820i 1 urn:miriam:microsporidia ^\w+$ MicrosporidiaDB MimoDB http://immunet.cn/mimodb/ http://immunet.cn/mimodb/browse.php?table=mimoset&ID=$id 1 1 urn:miriam:mimodb ^\d+$ MimoDB MINT http://mint.bio.uniroma2.it/mint/ http://mint.bio.uniroma2.it/mint/search/inFrameInteraction.do?interactionAc=$id MINT-10000 pathway 1 urn:miriam:mint ^MINT\-\d{1,5}$ MINT MIPModDB http://bioinfo.iitk.ac.in/MIPModDB http://bioinfo.iitk.ac.in/MIPModDB/result.php?code=$id HOSAPI0399 1 urn:miriam:mipmod ^\w+$ MIPModDB miRBase mature sequence Mbm http://www.mirbase.org/ http://www.mirbase.org/cgi-bin/mature.pl?mature_acc=$id MIMAT0000001 1 urn:miriam:mirbase.mature MIMAT\d{7} miRBase mature sequence miRBase Sequence Mb http://microrna.sanger.ac.uk/ http://microrna.sanger.ac.uk/cgi-bin/sequences/mirna_entry.pl?acc=$id MI0000001 gene 1 urn:miriam:mirbase MI\d{7} miRBase Sequence mirEX http://comgen.pl/mirex/?page=home http://comgen.pl/mirex/?page=results/record&name=$id&web_temp=1683440&exref=pp2a&limit=yes 165a 1 urn:miriam:mirex ^\d+(\w+)?$ mirEX MIRIAM Registry collection http://www.ebi.ac.uk/miriam/ http://www.ebi.ac.uk/miriam/main/$id MIR:00000008 1 urn:miriam:miriam.collection ^MIR:000\d{5}$ MIRIAM Registry collection MIRIAM Registry resource http://www.ebi.ac.uk/miriam/ http://www.ebi.ac.uk/miriam/main/resources/$id MIR:00100005 1 urn:miriam:miriam.resource ^MIR:001\d{5}$ MIRIAM Registry resource MIRIAM Resources http://www.ebi.ac.uk/miriam/ http://www.ebi.ac.uk/miriam/main/$id MIR:00000008 ontology 1 urn:miriam:miriam miRNEST http://lemur.amu.edu.pl/share/php/mirnest/ http://lemur.amu.edu.pl/share/php/mirnest/search.php?search_term=$id MNEST029358 1 urn:miriam:mirnest ^MNEST\d+$ miRNEST MMRRC http://www.mmrrc.org/ http://www.mmrrc.org/catalog/getSDS.php?mmrrc_id=$id 70 1 urn:miriam:mmrrc ^\d+$ MMRRC ModelDB http://senselab.med.yale.edu/ModelDB/ http://senselab.med.yale.edu/ModelDB/ShowModel.asp?model=$id 45539 pathway 1 urn:miriam:modeldb ^\d+$ ModelDB Molecular Interactions Ontology http://www.ebi.ac.uk/ontology-lookup/ http://www.ebi.ac.uk/ontology-lookup/?termId=$id MI:0308 ontology 1 urn:miriam:obo.mi ^MI:\d{4}$ Molecular Interactions Ontology Molecular Modeling Database http://www.ncbi.nlm.nih.gov/sites/entrez?db=structure http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?uid=$id 50885 pathway 1 urn:miriam:mmdb ^\d{1,5}$ Molecular Modeling Database MycoBank http://www.mycobank.org/ http://www.mycobank.org/MycoTaxo.aspx?Link=T&Rec=$id 349124 1 urn:miriam:mycobank ^\d+$ MycoBank MycoBrowser leprae http://mycobrowser.epfl.ch/leprosy.html http://mycobrowser.epfl.ch/leprosysearch.php?gene+name=$id ML0224 1 urn:miriam:myco.lepra ^ML\w+$ MycoBrowser leprae MycoBrowser marinum http://mycobrowser.epfl.ch/marinolist.html http://mycobrowser.epfl.ch/marinosearch.php?gene+name=$id MMAR_2462 1 urn:miriam:myco.marinum ^MMAR\_\d+$ MycoBrowser marinum MycoBrowser smegmatis http://mycobrowser.epfl.ch/smegmalist.html http://mycobrowser.epfl.ch/smegmasearch.php?gene+name=$id MSMEG_3769 1 urn:miriam:myco.smeg ^MSMEG\w+$ MycoBrowser smegmatis MycoBrowser tuberculosis http://tuberculist.epfl.ch/ http://tuberculist.epfl.ch/quicksearch.php?gene+name=$id Rv1908c 1 urn:miriam:myco.tuber ^\w+$ MycoBrowser tuberculosis NAPP http://napp.u-psud.fr/ http://napp.u-psud.fr/Niveau2.php?specie=$id 351 1 urn:miriam:napp ^\d+$ NAPP NARCIS http://persistent-identifier.nl/ http://oai.cwi.nl/oai?verb=GetRecord&metadataPrefix=nl_didl&identifier=oai:cwi.nl:$id oai:cwi.nl:4725 1 urn:miriam:narcis ^oai\:cwi\.nl\:\d+$ NARCIS NASC code http://arabidopsis.info/ http://arabidopsis.info/StockInfo?NASC_id=$id N1899 1 urn:miriam:nasc ^(\w+)?\d+$ NASC code NASC Gene N ATMG00960-TAIR-G gene Arabidopsis thaliana 1 N AT[\dCM]G\d{5}\-TAIR\-G NCBI Protein http://www.ncbi.nlm.nih.gov/protein http://www.ncbi.nlm.nih.gov/protein/$id CAA71118.1 1 urn:miriam:ncbiprotein ^\w+\d+(\.\d+)?$ NCBI Protein NCI Pathway Interaction Database: Pathway http://pid.nci.nih.gov/ http://pid.nci.nih.gov/search/pathway_landing.shtml?what=graphic&jpg=on&pathway_id=$id pi3kcipathway pathway 1 urn:miriam:pid.pathway ^\w+$ NCI Pathway Interaction Database: Pathway NCIm http://ncim.nci.nih.gov/ http://ncim.nci.nih.gov/ncimbrowser/ConceptReport.jsp?dictionary=NCI%20MetaThesaurus&code=$id C0026339 1 urn:miriam:ncim ^C\d+$ NCIm NCIt http://ncit.nci.nih.gov/ http://ncit.nci.nih.gov/ncitbrowser/ConceptReport.jsp?dictionary=NCI%20Thesaurus&code=$id C80519 1 urn:miriam:ncit ^C\d+$ NCIt NeuroLex http://www.neurolex.org/wiki/Main_Page http://www.neurolex.org/wiki/$id Birnlex_721 ontology 1 urn:miriam:neurolex ^([Bb]irnlex_|Sao|nlx_|GO_|CogPO|HDO)\d+$ NeuroLex NeuroMorpho http://neuromorpho.org/neuroMorpho/index.jsp http://neuromorpho.org/neuroMorpho/neuron_info.jsp?neuron_name=$id Rosa2 experiment 1 urn:miriam:neuromorpho ^\w+$ NeuroMorpho NeuronDB http://senselab.med.yale.edu/NeuronDB/ http://senselab.med.yale.edu/NeuronDB/NeuronProp.aspx?id=$id 265 experiment 1 urn:miriam:neurondb ^\d+$ NeuronDB NEXTDB http://nematode.lab.nig.ac.jp/ http://nematode.lab.nig.ac.jp/db2/ShowCloneInfo.php?clone=$id 6b1 1 urn:miriam:nextdb ^[A-Za-z0-9]+$ NEXTDB nextProt http://www.nextprot.org/ http://www.nextprot.org/db/entry/$id NX_O00165 1 urn:miriam:nextprot ^NX_\w+ nextProt NIAEST http://lgsun.grc.nia.nih.gov/cDNA/ http://lgsun.grc.nia.nih.gov/cgi-bin/pro3?sname1=$id J0705A10 1 urn:miriam:niaest ^\w\d{4}\w\d{2}(\-[35])?$ NIAEST NITE Biological Research Center Catalogue http://www.nbrc.nite.go.jp/e/index.html http://www.nbrc.nite.go.jp/NBRC2/NBRCCatalogueDetailServlet?ID=NBRC&CAT=$id 00001234 1 urn:miriam:nbrc ^\d+$ NITE Biological Research Center Catalogue NONCODE http://www.noncode.org/ http://www.noncode.org/NONCODERv3/ncrna.php?ncid=$id 377550 1 urn:miriam:noncode ^\d+$ NONCODE NucleaRDB http://www.receptors.org/nucleardb/ http://www.receptors.org/nucleardb/proteins/$id prgr_human 1 urn:miriam:nuclearbd ^\w+\_\w+$ NucleaRDB NuGO wiki Nw http://wiki.nugo.org/index.php/$id HMDB00001 metabolite 0 Nw OMA Group http://omabrowser.org/cgi-bin/gateway.pl http://omabrowser.org/cgi-bin/gateway.pl?f=DisplayGroup&p1=$id LCSCCPN 1 urn:miriam:oma.grp ^[A-Z]+$ OMA Group OMA Protein http://omabrowser.org/cgi-bin/gateway.pl http://omabrowser.org/cgi-bin/gateway.pl?f=DisplayEntry&p1=$id HUMAN16963 1 urn:miriam:oma.protein ^[A-Z0-9]{5}\d+$ OMA Protein OMIA http://omia.angis.org.au/ http://omia.angis.org.au/$id/ 1000 1 urn:miriam:omia ^\d+$ OMIA OMIM Om http://omim.org/ http://omim.org/entry/$id 603903 gene 1 urn:miriam:omim ^[*#+%^]?\d{6}$ OMIM Ontology for Biomedical Investigations http://obi-ontology.org/page/Main_Page http://ashby.csail.mit.edu/cgi-bin/obiterm?ref=$id OBI_0000225 ontology 1 urn:miriam:obo.obi ^OBI_\d{7}$ Ontology for Biomedical Investigations Ontology of Physics for Biology http://bioportal.bioontology.org/ http://bioportal.bioontology.org/ontologies/1141?p=terms&conceptid=OPB:$id OPB_00573 ontology 1 urn:miriam:opb ^OPB_\d+$ Ontology of Physics for Biology OPM http://opm.phar.umich.edu/ http://opm.phar.umich.edu/protein.php?pdbid=$id 1h68 1 urn:miriam:opm ^[0-9][A-Za-z0-9]{3}$ OPM Orphanet http://www.orpha.net/consor/ http://www.orpha.net/consor/cgi-bin/OC_Exp.php?Lng=EN&Expert=$id 85163 1 urn:miriam:orphanet ^\d+$ Orphanet OrthoDB http://cegg.unige.ch/orthodb4 http://cegg.unige.ch/orthodb/results?searchtext=$id Q9P0K8 1 urn:miriam:orthodb ^\w+$ OrthoDB Oryzabase Ob http://www.shigen.nig.ac.jp/rice/oryzabase http://www.shigen.nig.ac.jp/rice/oryzabase/gateway/gatewayAction.do?target=symbol&id=$id 468 gene Oryza sativa 1 Ob Other O gene 1 O PaleoDB http://paleodb.org/ http://paleodb.org/cgi-bin/bridge.pl?a=basicTaxonInfo&taxon_no=$id 83088 1 urn:miriam:paleodb ^\d+$ PaleoDB PANTHER http://www.pantherdb.org/ http://www.pantherdb.org/panther/family.do?clsAccession=$id PTHR12345 protein 1 urn:miriam:panther ^PTHR\d{5}(\:SF\d{1,3})?$ PANTHER Pathway Commons http://www.pathwaycommons.org/pc/ http://www.pathwaycommons.org/pc/record2.do?id=$id 485991 pathway 1 urn:miriam:pathwaycommons ^\d+$ Pathway Commons Pathway Ontology http://rgd.mcw.edu/rgdweb/ontology/search.html http://rgd.mcw.edu/rgdweb/ontology/annot.html?acc_id=$id PW:0000208 1 urn:miriam:obo.pw ^PW:\d{7}$ Pathway Ontology PATO http://www.ebi.ac.uk/ontology-lookup/ http://www.ebi.ac.uk/ontology-lookup/?termId=$id PATO:0001998 ontology 1 urn:miriam:obo.pato ^PATO:\d{7}$ PATO Pazar Transcription Factor http://www.pazar.info/ http://www.pazar.info/cgi-bin/tf_search.cgi?geneID=$id TF0001053 1 urn:miriam:pazar ^TF\w+$ Pazar Transcription Factor PDB Pd http://www.pdb.org/ http://www.rcsb.org/pdb/explore/explore.do?structureId=$id 2gc4 protein 1 urn:miriam:pdb ^[0-9][A-Za-z0-9]{3}$ Protein Data Bank PeptideAtlas http://www.peptideatlas.org/ https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/Summarize_Peptide?query=QUERY&searchForThis=$id PAp00000009 protein 1 urn:miriam:peptideatlas ^PAp[0-9]{8}$ PeptideAtlas Peroxibase http://peroxibase.toulouse.inra.fr/ http://peroxibase.toulouse.inra.fr/listing.php?action=view&id=$id 5282 1 urn:miriam:peroxibase ^\d+$ Peroxibase Pfam Pf http://pfam.sanger.ac.uk/ http://pfam.sanger.ac.uk/family/$id/ PF01234 protein 1 urn:miriam:pfam ^PF\d{5}$ Pfam PharmGKB Disease http://www.pharmgkb.org/ http://www.pharmgkb.org/disease/$id PA447218 ontology 1 urn:miriam:pharmgkb.disease ^PA\d+$ PharmGKB Disease PharmGKB Drug http://www.pharmgkb.org/ http://www.pharmgkb.org/drug/$id PA448710 metabolite 1 urn:miriam:pharmgkb.drug ^PA\d+$ PharmGKB Drug PharmGKB Gene http://www.pharmgkb.org/ http://www.pharmgkb.org/gene/$id PA131 1 urn:miriam:pharmgkb.gene ^PA\w+$ PharmGKB Gene PharmGKB Pathways http://www.pharmgkb.org/ http://www.pharmgkb.org/pathway/$id PA146123006 pathway 1 urn:miriam:pharmgkb.pathways ^PA\d+$ PharmGKB Pathways Phenol-Explorer http://www.phenol-explorer.eu/ http://www.phenol-explorer.eu/contents/total?food_id=$id 75 1 urn:miriam:phenolexplorer ^\d+$ Phenol-Explorer PhosphoSite Protein http://www.phosphosite.org/homeAction.do http://www.phosphosite.org/proteinAction.do?id=$id 12300 protein 1 urn:miriam:phosphosite.protein ^\d{5}$ PhosphoSite Protein PhosphoSite Residue http://www.phosphosite.org/homeAction.do http://www.phosphosite.org/siteAction.do?id=$id 2842 protein 1 urn:miriam:phosphosite.residue ^\d+$ PhosphoSite Residue PhylomeDB http://phylomedb.org/ http://phylomedb.org/?seqid=$id Phy000CLXM_RAT 1 urn:miriam:phylomedb ^\w+$ PhylomeDB PINA http://cbg.garvan.unsw.edu.au/pina/ http://cbg.garvan.unsw.edu.au/pina/interactome.oneP.do?ac=$id&showExtend=null Q13485 1 urn:miriam:pina ^([A-N,R-Z][0-9][A-Z][A-Z, 0-9][A-Z, 0-9][0-9])|([O,P,Q][0-9][A-Z, 0-9][A-Z, 0-9][A-Z, 0-9][0-9])$ PINA PiroplasmaDB http://piroplasmadb.org/ http://piroplasmadb.org/piro/showRecord.do?name=GeneRecordClasses.GeneRecordClass&source_id=$id TA14985 1 urn:miriam:piroplasma ^TA\d+$ PiroplasmaDB PIRSF http://pir.georgetown.edu/pirsf/ http://pir.georgetown.edu/cgi-bin/ipcSF?id=$id PIRSF000100 protein 1 urn:miriam:pirsf ^PIRSF\d{6}$ PIRSF Plant Genome Network http://pgn.cornell.edu/ http://pgn.cornell.edu/unigene/unigene_assembly_contigs.pl?unigene_id=$id 196828 1 urn:miriam:pgn ^\d+$ Plant Genome Network Plant Ontology http://www.plantontology.org/ http://www.plantontology.org/amigo/go.cgi?view=details&query=$id PO:0009089 1 urn:miriam:obo.po ^PO\:\d+$ Plant Ontology PlantGDB Pl http://www.plantgdb.org/ PUT-157a-Vitis_vinifera-37378 gene 1 Q PUT-[\w\d-]+ PlasmoDB http://plasmodb.org/plasmo/ http://plasmodb.org/plasmo/showRecord.do?name=GeneRecordClasses.GeneRecordClass&source_id=$id PF11_0344 1 urn:miriam:plasmodb ^\w+$ PlasmoDB PMP http://www.proteinmodelportal.org/ http://www.proteinmodelportal.org/?pid=modelDetail&pmpuid=$id 1000011778810 1 urn:miriam:pmp ^\d+$ PMP PolBase http://polbase.neb.com/ http://polbase.neb.com/polymerases/$id#sequences 19-T4 1 urn:miriam:polbase ^[A-Za-z-0-9]+$ PolBase PomBase http://www.pombase.org/ http://www.pombase.org/spombe/result/$id SPCC13B11.01 1 urn:miriam:pombase ^S\w+(\.)?\w+(\.)?$ PomBase PRIDE http://www.ebi.ac.uk/pride/ http://www.ebi.ac.uk/pride/experimentLink.do?experimentAccessionNumber=$id 1 protein 1 urn:miriam:pride ^\d+$ PRIDE ProDom http://prodom.prabi.fr/prodom/current/html/home.php http://prodom.prabi.fr/prodom/current/cgi-bin/request.pl?question=DBEN&query=$id PD10000 protein 1 urn:miriam:prodom ^PD\d+$ ProDom ProGlycProt http://www.proglycprot.org/ http://www.proglycprot.org/detail.aspx?ProId=$id AC119 1 urn:miriam:proglyc ^[A-Z]C\d{1,3}$ ProGlycProt PROSITE http://www.expasy.org/prosite/ http://prosite.expasy.org/$id PS00001 protein 1 urn:miriam:prosite ^PS\d{5}$ PROSITE ProtClustDB http://www.ncbi.nlm.nih.gov/proteinclusters?db=proteinclusters http://www.ncbi.nlm.nih.gov/sites/entrez?Db=proteinclusters&Cmd=DetailsSearch&Term=$id O80725 1 urn:miriam:protclustdb ^\w+$ ProtClustDB Protein Model Database http://mi.caspur.it/PMDB/ http://mi.caspur.it/PMDB/user/search.php?idsearch=$id PM0012345 1 urn:miriam:pmdb ^PM\d{7} Protein Model Database Protein Modification Ontology http://www.ebi.ac.uk/ontology-lookup/ http://www.ebi.ac.uk/ontology-lookup/?termId=$id MOD:00001 ontology 1 urn:miriam:obo.psi-mod ^MOD:\d{5} Protein Modification Ontology Protein Ontology http://pir.georgetown.edu/pro/pro.shtml http://pir.georgetown.edu/cgi-bin/pro/entry_pro?id=$id PR:000000563 1 urn:miriam:obo.pr ^PR\:\d+$ Protein Ontology ProtoNet Cluster http://www.protonet.cs.huji.ac.il/ http://www.protonet.cs.huji.ac.il/requested/cluster_card.php?cluster=$id 4349895 1 urn:miriam:protonet.cluster ^\d+$ ProtoNet Cluster ProtoNet ProteinCard http://www.protonet.cs.huji.ac.il/ http://www.protonet.cs.huji.ac.il/requested/protein_card.php?protein_id=$id 16941567 1 urn:miriam:protonet.proteincard ^\d+$ ProtoNet ProteinCard Pseudomonas Genome Database http://www.pseudomonas.com/ http://www.pseudomonas.com/getAnnotation.do?locusID=$id PSEEN0001 1 urn:miriam:pseudomonas ^P\w+$ Pseudomonas Genome Database PubChem Cp http://pubchem.ncbi.nlm.nih.gov/ 100101 metabolite 1 PubChem-bioassay http://www.ncbi.nlm.nih.gov/sites/entrez?db=pcassay http://pubchem.ncbi.nlm.nih.gov/assay/assay.cgi?aid=$id 1018 metabolite 1 urn:miriam:pubchem.bioassay ^\d+$ PubChem-bioassay PubChem-compound Cpc http://pubchem.ncbi.nlm.nih.gov/ http://pubchem.ncbi.nlm.nih.gov/summary/summary.cgi?cid=$id 100101 metabolite 1 urn:miriam:pubchem.compound ^\d+$ PubChem-compound PubChem-substance Cps http://pubchem.ncbi.nlm.nih.gov/ http://pubchem.ncbi.nlm.nih.gov/summary/summary.cgi?sid=$id 100101 metabolite 1 urn:miriam:pubchem.substance ^\d+$ PubChem-substance PubMed http://www.ncbi.nlm.nih.gov/PubMed/ http://www.ncbi.nlm.nih.gov/pubmed/$id 16333295 publication 1 urn:miriam:pubmed ^\d+$ PubMed PubMed Central http://www.ncbi.nlm.nih.gov/pmc/ http://www.ncbi.nlm.nih.gov/pmc/articles/$id/?tool=pubmed PMC3084216 1 urn:miriam:pmc PMC\d+ PubMed Central Reactome Re http://www.reactome.org/ http://www.reactome.org/cgi-bin/eventbrowser_st_id?FROM_REACTOME=1&ST_ID=$id REACT_1590 pathway 1 urn:miriam:reactome ^REACT_\d+(\.\d+)?$ Reactome REBASE http://rebase.neb.com/rebase/ http://rebase.neb.com/rebase/enz/$id.html 101 1 urn:miriam:rebase ^\d+$ REBASE RefSeq Q http://www.ncbi.nlm.nih.gov/projects/RefSeq/ http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?val=$id NP_012345 gene 1 urn:miriam:refseq ^(NC|AC|NG|NT|NW|NZ|NM|NR|XM|XR|NP|AP|XP|ZP)_\d+$ RefSeq Relation Ontology http://www.obofoundry.org/ro/ http://www.obofoundry.org/ro/#$id OBO_REL:is_a ontology 1 urn:miriam:obo.ro ^OBO_REL:\w+$ Relation Ontology RESID http://www.ebi.ac.uk/RESID/ http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-id+6JSUg1NA6u4+-e+[RESID:'$id'] AA0001 protein 1 urn:miriam:resid ^AA\d{4}$ RESID Rfam Rf http://www.sanger.ac.uk/cgi-bin/Rfam/getacc?$id RF00066 gene 1 Rf RF\d+ RGD R http://rgd.mcw.edu/ http://rgd.mcw.edu/tools/genes/genes_view.cgi?id=$id 2018 gene Rattus norvegicus 1 urn:miriam:rgd ^\d{4,7}$ Rat Genome Database Rhea http://www.ebi.ac.uk/rhea/ http://www.ebi.ac.uk/rhea/reaction.xhtml?id=$id 12345 protein 1 urn:miriam:rhea ^\d{5}$ Rhea Rice Ensembl Gene Os http://www.gramene.org/Oryza_sativa http://www.gramene.org/Oryza_sativa/geneview?gene=$id LOC_Os04g54800 gene Oryza sativa 1 Os Rice Genome Annotation Project http://rice.plantbiology.msu.edu/annotation_pseudo_current.shtml http://rice.plantbiology.msu.edu/cgi-bin/ORF_infopage.cgi?&orf=$id LOC_Os02g13300 1 urn:miriam:ricegap ^LOC\_Os\d{1,2}g\d{5}$ Rice Genome Annotation Project RNA Modification Database http://rna-mdb.cas.albany.edu/RNAmods/rnaover.htm http://s59.cas.albany.edu/RNAmods/cgi-bin/rnashow.cgi?$id 101 1 urn:miriam:rnamods ^\d{3}$ RNA Modification Database Rouge http://www.kazusa.or.jp/rouge/ http://www.kazusa.or.jp/rouge/gfpage/$id mKIAA4200 1 urn:miriam:rouge ^m\w+$ Rouge SABIO-RK EC Record http://sabiork.h-its.org/ http://sabiork.h-its.org/index2.jsp?EC=$id 2.7.1.1 protein 1 urn:miriam:sabiork.ec ^((\d+)|(\d+\.\d+)|(\d+\.\d+\.\d+)|(\d+\.\d+\.\d+\.\d+))$ SABIO-RK EC Record SABIO-RK Kinetic Record http://sabiork.h-its.org/ http://sabiork.h-its.org/kineticLawEntry.jsp?kinlawid=$id 5046 experiment 1 urn:miriam:sabiork.kineticrecord ^\d+$ SABIO-RK Kinetic Record SABIO-RK Reaction http://sabiork.h-its.org/ http://sabiork.h-its.org/index2.jsp?reac=$id 75 protein 1 urn:miriam:sabiork.reaction ^\d+$ SABIO-RK Reaction Saccharomyces genome database pathways http://pathway.yeastgenome.org/ http://pathway.yeastgenome.org/YEAST/new-image?type=PATHWAY&object=$id PWY3O-214 pathway Saccharomyces cerevisiae 1 urn:miriam:sgd.pathways ^PWY\w{2}\-\d{3}$ Saccharomyces genome database pathways ScerTF http://stormo.wustl.edu/ScerTF/ http://stormo.wustl.edu/ScerTF/details/$id/ RSC3 1 urn:miriam:scretf ^\w+$ ScerTF Science Signaling Pathway http://stke.sciencemag.org/ http://stke.sciencemag.org/cgi/cm/stkecm;$id CMP_18019 1 urn:miriam:sciencesignaling.path ^CMP_\d+$ Science Signaling Pathway Science Signaling Pathway-Dependent Component http://stke.sciencemag.org/ http://stke.sciencemag.org/cgi/cm/stkecm;$id CMN_15494 1 urn:miriam:sciencesignaling.pdc ^CMN_\d+$ Science Signaling Pathway-Dependent Component Science Signaling Pathway-Independent Component http://stke.sciencemag.org/ http://stke.sciencemag.org/cgi/cm/stkecm;$id CMC_15493 1 urn:miriam:sciencesignaling.pic ^CMC_\d+$ Science Signaling Pathway-Independent Component sequence ontology http://www.sequenceontology.org/ http://www.sequenceontology.org/miso/current_release/term/$id SO:0000704 ontology 1 urn:miriam:obo.so ^SO:\d{7}$ Sequence Ontology Sequence Read Archive http://www.ncbi.nlm.nih.gov/sra http://www.ncbi.nlm.nih.gov/sra/$id?&report=full SRX000007 1 urn:miriam:insdc.sra ^[SED]R\w\d{6} Sequence Read Archive SGD D http://www.yeastgenome.org/ http://www.yeastgenome.org/cgi-bin/locus.fpl?dbid=$id S000028457 gene 1 urn:miriam:sgd ^S\d+$ SGD Signaling Gateway http://www.signaling-gateway.org/molecule http://www.signaling-gateway.org/molecule/query?afcsid=$id A001094 protein 1 urn:miriam:signaling-gateway A\d{6}$ Signaling Gateway SitEx http://www-bionet.sscc.ru/sitex/ http://www-bionet.sscc.ru/sitex/index.php?siteid=$id 1000 1 urn:miriam:sitex ^\d+$ SitEx Small Molecule Pathway Database http://www.smpdb.ca/pathways http://pathman.smpdb.ca/pathways/$id/pathway SMP00001 pathway 1 urn:miriam:smpdb ^SMP\d{5}$ Small Molecule Pathway Database SMART http://smart.embl-heidelberg.de/ http://smart.embl-heidelberg.de/smart/do_annotation.pl?DOMAIN=$id SM00015 protein 1 urn:miriam:smart ^SM\d{5}$ SMART SNOMED CT http://terminology.vetmed.vt.edu/SCT/menu.cfm http://terminology.vetmed.vt.edu/SCT/ISA.cfm?SCT_ConceptID=$id 284196006 1 urn:miriam:snomedct ^(\w+)?\d+$ SNOMED CT Sol Genomics Network http://solgenomics.net/ http://solgenomics.net/phenome/locus_display.pl?locus_id=$id 0001 1 urn:miriam:sgn ^\d+$ Sol Genomics Network SoyBase http://soybase.org/ http://soybeanbreederstoolbox.org/search/search_results.php?category=SNP&search_term=$id BARC-013845-01256 1 urn:miriam:soybase ^\w+(\-)?\w+(\-)?\w+$ SoyBase Spectral Database for Organic Compounds http://riodb01.ibase.aist.go.jp/sdbs/cgi-bin/direct_frame_top.cgi http://riodb01.ibase.aist.go.jp/sdbs/cgi-bin/cre_frame_disp.cgi?sdbsno=$id 4544 1 urn:miriam:sdbs \d+$ Spectral Database for Organic Compounds SPIKE Map http://www.cs.tau.ac.il/~spike/ http://www.cs.tau.ac.il/~spike/maps/$id.html spike00001 1 urn:miriam:spike.map ^spike\d{5}$ SPIKE Map SPRINT http://www.bioinf.manchester.ac.uk/dbbrowser/sprint/ http://www.bioinf.manchester.ac.uk/cgi-bin/dbbrowser/sprint/searchprintss.cgi?prints_accn=$id&display_opts=Prints&category=None&queryform=false®expr=off PR00001 protein 1 urn:miriam:sprint ^PR\d{5}$ SPRINT STITCH http://stitch.embl.de/ http://stitch.embl.de/interactions/$id ICXJVZHDZFXYQC 1 urn:miriam:stitch ^\w{14}$ STITCH STRING http://string.embl.de/ http://string.embl.de/interactions/$id P53350 1 urn:miriam:string ^([A-N,R-Z][0-9][A-Z][A-Z, 0-9][A-Z, 0-9][0-9])|([O,P,Q][0-9][A-Z, 0-9][A-Z, 0-9][A-Z, 0-9][0-9])|([0-9][A-Za-z0-9]{3})$ STRING SubstrateDB http://substrate.burnham.org/ http://substrate.burnham.org/protein/annotation/$id/html 1915 1 urn:miriam:pmap.substratedb ^\w+$ SubstrateDB SubtiWiki http://www.subtiwiki.uni-goettingen.de/wiki/index.php/Main_Page http://www.subtiwiki.uni-goettingen.de/wiki/index.php/$id BSU29180 pathway 1 urn:miriam:subtiwiki ^BSU\d{5}$ SubtiWiki SUPFAM http://supfam.org/SUPERFAMILY/ http://supfam.org/SUPERFAMILY/cgi-bin/scop.cgi?ipid=$id SSF57615 1 urn:miriam:supfam ^\w+$ SUPFAM SWISS-MODEL http://swissmodel.expasy.org/ http://swissmodel.expasy.org/repository/smr.php?sptr_ac=$id P23298 1 urn:miriam:swiss-model ^\w+$ SWISS-MODEL Systems Biology Ontology http://www.ebi.ac.uk/sbo/ http://www.ebi.ac.uk/sbo/main/$id SBO:0000262 1 urn:miriam:biomodels.sbo ^SBO:\d{7}$ Systems Biology Ontology Systems Biology Ontology http://www.ebi.ac.uk/sbo/ http://www.ebi.ac.uk/sbo/main/$id SBO:0000262 ontology 1 urn:miriam:obo.sbo T3DB http://www.t3db.org/ http://www.t3db.org/toxins/$id T3D0001 metabolite 1 urn:miriam:t3db ^T3D\d+$ T3DB TAIR A http://arabidopsis.org/index.jsp http://arabidopsis.org/servlets/TairObject?type=locus&name=$id AT1G01030 gene 1 urn:miriam:tair.locus ^AT[1-5]G\d{5}$ TAIR Locus TAIR Gene http://arabidopsis.org/index.jsp http://arabidopsis.org/servlets/TairObject?accession=$id Gene:2200934 gene 1 urn:miriam:tair.gene ^Gene:\d{7}$ TAIR Gene TAIR Protein http://arabidopsis.org/index.jsp http://arabidopsis.org/servlets/TairObject?accession=$id AASequence:1009107926 protein 1 urn:miriam:tair.protein ^AASequence:\d{10}$ TAIR Protein TarBase http://diana.cslab.ece.ntua.gr/DianaToolsNew/index.php?r=tarbase http://diana.cslab.ece.ntua.gr/DianaToolsNew/index.php?r=tarbase/index&mirnas=$id hsa-let-7b 1 urn:miriam:tarbase ^\w+\-\w+\-\w+ TarBase Taxonomy http://www.ncbi.nlm.nih.gov/Taxonomy/ http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&id=$id 9606 organism 1 urn:miriam:taxonomy ^\d+$ Taxonomy TEDDY http://teddyontology.sourceforge.net/ http://bioportal.bioontology.org/ontologies/1407?p=terms&conceptid=$id TEDDY_0000066 ontology 1 urn:miriam:biomodels.teddy ^TEDDY_\d{7}$ TEDDY Tetrahymena Genome Database http://ciliate.org/index.php/ http://ciliate.org/index.php/feature/details/$id TTHERM_00648910 1 urn:miriam:tgd ^TTHERM\_\d+$ Tetrahymena Genome Database TIGR Ti http://www.jcvi.org/ 12012.t00308 gene 1 Ti TIGRFAMS http://www.jcvi.org/cgi-bin/tigrfams/Listing.cgi http://www.jcvi.org/cgi-bin/tigrfams/HmmReportPage.cgi?acc=$id TIGR00010 1 urn:miriam:tigrfam ^TIGR\d+$ TIGRFAMS Tissue List http://www.uniprot.org/docs/tisslist.txt http://www.uniprot.org/tissues/$id TS-0285 1 urn:miriam:tissuelist ^TS-\d+{4} Tissue List TopFind http://clipserve.clip.ubc.ca/topfind http://clipserve.clip.ubc.ca/topfind/proteins/$id Q9UKQ2 1 urn:miriam:topfind ^([A-N,R-Z][0-9][A-Z][A-Z, 0-9][A-Z, 0-9][0-9])|([O,P,Q][0-9][A-Z, 0-9][A-Z, 0-9][A-Z, 0-9][0-9])$ TopFind ToxoDB http://toxodb.org/toxo/ http://toxodb.org/toxo/showRecord.do?name=GeneRecordClasses.GeneRecordClass&source_id=$id TGME49_053730 1 urn:miriam:toxoplasma ^\w+$ ToxoDB Transport Classification Database http://www.tcdb.org/ http://www.tcdb.org/search/result.php?tc=$id 5.A.1.1.1 protein 1 urn:miriam:tcdb ^\d+\.[A-Z]\.\d+\.\d+\.\d+$ Transport Classification Database TreeBASE http://treebase.org/treebase-web/ http://treebase.org/treebase-web/search/study/summary.html?id=$id 1000 1 urn:miriam:treebase ^\d+$ TreeBASE TrichDB http://trichdb.org/trichdb/ http://trichdb.org/trichdb/showRecord.do?name=GeneRecordClasses.GeneRecordClass&source_id=$id TVAG_386080 1 urn:miriam:trichdb ^\w+$ TrichDB TriTrypDB http://tritrypdb.org/tritrypdb/ http://tritrypdb.org/tritrypdb/showRecord.do?name=GeneRecordClasses.GeneRecordClass&source_id=$id Tb927.8.620 1 urn:miriam:tritrypdb ^\w+(\.)?\w+(\.)?\w+ TriTrypDB TTD Drug http://bidd.nus.edu.sg/group/cjttd/TTD_HOME.asp http://bidd.nus.edu.sg/group/cjttd/ZFTTDDRUG.asp?ID=$id DAP000773 metabolite 1 urn:miriam:ttd.drug ^DAP\d+$ TTD Drug TTD Target http://bidd.nus.edu.sg/group/cjttd/TTD_HOME.asp http://bidd.nus.edu.sg/group/cjttd/ZFTTDDetail.asp?ID=$id TTDS00056 protein 1 urn:miriam:ttd.target ^TTDS\d+$ TTD Target TubercuList Tb http://tuberculist.epfl.ch http://tuberculist.epfl.ch/quicksearch.php?gene+name=$id Rv0064 gene Mycobacterium tuberculosis 1 Tb Rv\d{4}(A|B|c|\.\d)? uBio NameBank http://www.ubio.org http://www.ubio.org/browser/details.php?namebankID=$id 2555646 1 urn:miriam:ubio.namebank ^\d+$ uBio NameBank UCSC Genome Browser Uc http://genome.ucsc.edu/ http://genome.ucsc.edu/cgi-bin/hgTracks?position=$id uc001tyh.1 gene 1 Uc uc\d{3}[a-z]{3}\.\d UM-BBD Biotransformation Rule http://umbbd.ethz.ch/servlets/pageservlet?ptype=allrules http://www.umbbd.ethz.ch/servlets/rule.jsp?rule=$id bt0001 1 urn:miriam:umbbd.rule ^bt\d+$ UM-BBD Biotransformation Rule UM-BBD Compound http://umbbd.msi.umn.edu/index.html http://umbbd.msi.umn.edu/servlets/pageservlet?ptype=c&compID=$id c0001 1 urn:miriam:umbbd.compound ^c\d+$ UM-BBD Compound UM-BBD Enzyme http://umbbd.msi.umn.edu/index.html http://umbbd.msi.umn.edu/servlets/pageservlet?ptype=ep&enzymeID=$id e0333 1 urn:miriam:umbbd.enzyme ^e\d+$ UM-BBD Enzyme UM-BBD Pathway http://umbbd.msi.umn.edu/index.html http://umbbd.msi.umn.edu/servlets/pageservlet?ptype=p&pathway_abbr=$id ala 1 urn:miriam:umbbd.pathway ^\w+$ UM-BBD Pathway UM-BBD Reaction http://umbbd.msi.umn.edu/index.html http://umbbd.msi.umn.edu/servlets/pageservlet?ptype=r&reacID=$id r0001 1 urn:miriam:umbbd.reaction ^r\d+$ UM-BBD Reaction UniGene U http://www.ncbi.nlm.nih.gov/sites/entrez?db=unigene http://www.ncbi.nlm.nih.gov/UniGene/clust.cgi?UGID=1548618&SEARCH=$id Hs.553708 gene 1 U [A-Z][a-z][a-z]?\.\d+ UniGene http://www.ncbi.nlm.nih.gov/unigene http://www.ncbi.nlm.nih.gov/unigene?term=$id 4900 1 urn:miriam:unigene ^\d+$ UniGene UniParc http://www.ebi.ac.uk/uniparc/ http://www.ebi.ac.uk/cgi-bin/dbfetch?db=uniparc&id=$id UPI000000000A protein 1 urn:miriam:uniparc ^UPI[A-F0-9]{10}$ UniParc Unipathway http://www.grenoble.prabi.fr/obiwarehouse/unipathway http://www.grenoble.prabi.fr/obiwarehouse/unipathway/upa?upid=$id UPA00206 pathway 1 urn:miriam:unipathway ^UPA\d{5}$ Unipathway Uniprot/TrEMBL S http://www.ebi.uniprot.org/ http://www.ebi.uniprot.org/entry/$id P62158 protein 1 urn:miriam:uniprot ^([A-N,R-Z][0-9][A-Z][A-Z, 0-9][A-Z, 0-9][0-9])|([O,P,Q][0-9][A-Z, 0-9][A-Z, 0-9][A-Z, 0-9][0-9])$ UniProt UniSTS http://www.ncbi.nlm.nih.gov/sites/entrez?db=unists http://www.ncbi.nlm.nih.gov/genome/sts/sts.cgi?uid=$id 456789 1 urn:miriam:unists ^\d+$ UniSTS Unit Ontology http://www.obofoundry.org/cgi-bin/detail.cgi?id=unit http://www.ebi.ac.uk/ontology-lookup/?termId=$id UO:0000080 ontology 1 urn:miriam:obo.unit ^UO:\d{7}? Unit Ontology Unite http://unite.ut.ee/ http://unite.ut.ee/bl_forw.php?nimi=$id UDB000691 1 urn:miriam:unite ^UDB\d{6}$ Unite Vbase2 http://www.vbase2.org/vbase2.php http://www.vbase2.org/vgene.php?id=$id humIGHV025 1 urn:miriam:vbase2 ^\w+$ Vbase2 VectorBase http://www.vectorbase.org/ http://www.vectorbase.org/Genome/BRCGene/?gene=$id ISCW007415 1 urn:miriam:vectorbase ^\D{4}\d{6}(\-\D{2})?$ VectorBase VIRsiRNA http://crdd.osdd.net/servers/virsirnadb http://crdd.osdd.net/servers/virsirnadb/record.php?details=$id virsi1909 1 urn:miriam:virsirna ^virsi\d+$ VIRsiRNA Wheat gene catalog Wc http://wheat.pw.usda.gov/ http://wheat.pw.usda.gov/sql?sql=select+distinct+genewgcreference.number+as+WGC,+reference.name+as+Reference,+reference.title+as+Title,+journal.name+as+Journal,+reference.volume+as+Volume,+reference.pages+as+Page+from+reference+inner+join+genewgcreference+on+genewgcreference.referenceid=reference.id+inner+join+journal+on+reference.journalid=journal.id+where+genewgcreference.number=$id 341 gene Triticum aestivum 1 Wc Wheat gene names Wn http://wheat.pw.usda.gov/ http://wheat.pw.usda.gov/report?class=gene;name=$id 5S-Rrna-D1_(Triticum) gene Triticum aestivum 1 Wn Wheat gene refs Wr http://wheat.pw.usda.gov/ http://wheat.pw.usda.gov/cgi-bin/graingenes/report.cgi?class=reference&name=$id WGS-95-1333 probe Triticum aestivum 0 Wr WikiGenes Wg http://www.wikigenes.org/ http://www.wikigenes.org/e/gene/e/$id.html 7157 gene 0 Wg WikiPathways Wp http://www.wikipathways.org/ http://www.wikipathways.org/index.php/Pathway:$id WP100 pathway 1 urn:miriam:wikipathways WP\d{1,5} WikiPathways Wikipedia Wi http://www.wikipedia.org http://en.wikipedia.org/wiki/$id Acetate metabolite 1 Wi Worfdb http://worfdb.dfci.harvard.edu/ http://worfdb.dfci.harvard.edu/index.php?search_type=name&page=showresultrc&race_query=$id T01B6.1 1 urn:miriam:worfdb ^\w+(\.\d+)? Worfdb WormBase W http://www.wormbase.org/ http://www.wormbase.org/db/gene/gene?name=$id;class=Gene WBGene00000001 gene Caenorhabditis elegans 1 urn:miriam:wormbase ^WBGene\d{8}$ WormBase Wormpep http://www.wormbase.org/db/seq/protein http://www.wormbase.org/db/seq/protein?name=$id CE28239 protein 1 urn:miriam:wormpep ^CE\d{5}$ Wormpep Xenbase http://www.xenbase.org/ http://www.xenbase.org/gene/showgene.do?method=displayGeneSummary&geneId=$id 922462 1 urn:miriam:xenbase ^\d+$ Xenbase YeTFasCo http://yetfasco.ccbr.utoronto.ca/ http://yetfasco.ccbr.utoronto.ca/showPFM.php?mot=$id YOR172W_571.0 1 urn:miriam:yetfasco ^\w+\_\d+(\.\d+)?$ YeTFasCo ZFIN Z http://zfin.org http://zfin.org/action/marker/view/$id ZDB-GENE-041118-11 gene Danio rerio 1 urn:miriam:zfin ZDB\-GENE\-\d+\-\d+ ZFIN Gene ZFIN Expression http://zfin.org http://zfin.org/action/genotype/show_all_expression?genoID=$id ZDB-GENO-980202-899 1 urn:miriam:zfin.expression ^ZDB\-GEN0\-\d+\-\d+$ ZFIN Expression ZFIN Phenotype http://zfin.org http://zfin.org/action/genotype/show_all_phenotype?zdbID=$id ZDB-GENO-980202-899 1 urn:miriam:zfin.phenotype ^ZDB\-GEN0\-\d+\-\d+$ ZFIN Phenotype