dbxref.txt
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UniProt Knowledgebase:
Swiss-Prot Protein Knowledgebase
TrEMBL Protein Database
SIB Swiss Institute of Bioinformatics; Geneva, Switzerland
European Bioinformatics Institute (EBI); Hinxton, United Kingdom
Protein Information Resource (PIR); Washington DC, USA
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Description: Databases cross-referenced in UniProtKB
Name: dbxref.txt
Release: 2013_06 of 29-May-2013
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This document lists the databases that are cross-referenced in UniProtKB.
It does not list WWW resources or databases specifically mentioned in the
"WEB RESOURCE" comment topic of UniProtKB entries.
It lists both the databases that are explicitly linked (in the DR lines and
in rare cases in the FT lines) and those to which implicit links can be
automatically generated by programs based on simple rules.
The Db_URL field allows to access an entry in the cross-referenced database
by substituting %s by the first ("primary") identifier found in a
cross-reference line, or %u by the UniProtKB accession number of the entry.
For more details on UniProtKB cross-references, implicit and explicit
links, you can read:
[Pubmed: 11488411]
Gasteiger E., Jung E., Bairoch A.
SWISS-PROT: connecting biological knowledge via a protein database.
Curr. Issues Mol. Biol. 3:47-55(2001)
___________________________________________________________________________
AC : DB-0160
Abbrev: Allergome
Name : Allergome; a platform for allergen knowledge
Ref : Curr. Allergy Asthma Rep. 9:376-383(2009); [Pubmed: 19671381]
LinkTp: Explicit
Server: http://www.allergome.org/
Db_URL: http://www.allergome.org/script/dettaglio.php?id_molecule=%s
Cat : Protein family/group databases
AC : DB-0145
Abbrev: ArachnoServer
Name : ArachnoServer: Spider toxin database
Ref : BMC Genomics 10:375-375(2009); [Pubmed: 19674480] [Article from publisher]
LinkTp: Explicit
Server: http://www.arachnoserver.org
Db_URL: http://www.arachnoserver.org/toxincard.html?id=%s
Cat : Organism-specific databases
AC : DB-0004
Abbrev: ArrayExpress
Name : ArrayExpress repository for microarray data
Ref : Nucleic Acids Res. 35:D747-D750(2007); [Pubmed: 17132828] [Article from publisher]
LinkTp: Explicit
Server: http://www.ebi.ac.uk/arrayexpress/
Db_URL: http://www.ebi.ac.uk/arrayexpress/genes/uniprot/%s
Cat : Gene expression databases
AC : DB-0133
Abbrev: Bgee
Name : Bgee dataBase for Gene Expression Evolution
Ref : Lecture Notes in Computer Science 5109:124-131(2008); [Article from publisher]
LinkTp: Explicit
Server: http://bgee.unil.ch
Db_URL: http://bgee.unil.ch/bgee/bgee?uniprot_id=%s
Cat : Gene expression databases
AC : DB-0127
Abbrev: BindingDB
Name : BindingDB database of measured binding affinities
Ref : Nucleic Acids Res. 35:D198-D201(2007); [Pubmed: 17145705] [Article from publisher]
LinkTp: Explicit
Server: http://www.bindingdb.org/
Db_URL: http://www.bindingdb.org/uniprot/%s
Cat : Other
AC : DB-0005
Abbrev: BioCyc
Name : BioCyc Collection of Pathway/Genome Databases
Ref : Nucleic Acids Res. 38:D473-D479(2010); [Pubmed: 19850718] [Article from publisher]
LinkTp: Explicit
Server: http://www.biocyc.org/
Db_URL: http://biocyc.org/getid?id=%s
Cat : Enzyme and pathway databases
AC : DB-0131
Abbrev: BRENDA
Name : BRENDA Comprehensive Enzyme Information System
Ref : Nucleic Acids Res. 35:D511-D514(2007); [Pubmed: 17202167] [Article from publisher]
LinkTp: Explicit
Server: http://www.brenda-enzymes.org
Db_URL: http://www.brenda-enzymes.org/php/result_flat.php4?ecno=%s1&UniProtAcc=%u&OrganismID=%s2&ShowAll=True
Cat : Enzyme and pathway databases
AC : DB-0136
Abbrev: CAZy
Name : Carbohydrate-Active enZymes
Ref : "Carbohydrate-active enzymes: an integrated database approach" (In) Gilbert H.J., Davies G., Henrissat B., Svensson B. (eds.): Recent Advances in Carbohydrate Bioengineering, pp. 3-12, The Royal Society of Chemistry, Cambridge (1999).;
LinkTp: Explicit
Server: http://www.cazy.org/
Db_URL: http://www.cazy.org/fam/%s.html
Cat : Protein family/group databases
AC : DB-0126
Abbrev: CGD
Name : Candida Genome Database
Ref : Nucleic Acids Res. 35:D452-D456(2007); [Pubmed: 17090582] [Article from publisher]
LinkTp: Explicit
Server: http://www.candidagenome.org/
Db_URL: http://www.candidagenome.org/cgi-bin/locus.pl?dbid=%s
Cat : Organism-specific databases
AC : DB-0174
Abbrev: ChEMBL
Name : ChEMBL database of bioactive drug-like small molecules
Ref : Nucleic Acids Res. 40:1100-1107(2012); [Pubmed: 21948594] [Article from publisher]
LinkTp: Explicit
Server: https://www.ebi.ac.uk/chembldb
Db_URL: https://www.ebi.ac.uk/chembldb/target/inspect/%s
Cat : Other
AC : DB-0176
Abbrev: ChiTaRS
Name : ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data.
Ref : Nucleic Acids Res. 2013 Jan 1;41(D1):D142-51; [Pubmed: 23143107] [Article from publisher]
LinkTp: Explicit
Server: http://chitars.bioinfo.cnio.es/
Db_URL: http://chitars.bioinfo.cnio.es/cgi-bin/search.pl?searchtype=gene_name&searchstr=%s&%s=1
Cat : Other
AC : DB-0008
Abbrev: CleanEx
Name : CleanEx database of gene expression profiles
Ref : Nucleic Acids Res. 32:D542-D547(2004); [Pubmed: 14681477] [Article from publisher]
LinkTp: Explicit
Server: http://www.cleanex.isb-sib.ch/
Db_URL: http://www.cleanex.isb-sib.ch/cgi-bin/get_doc?db=cleanex&format=nice&entry=%s
Cat : Gene expression databases
AC : DB-0010
Abbrev: COMPLUYEAST-2DPAGE
Name : 2-DE database at Universidad Complutense de Madrid
Ref : J. Chromatogr. B. Biomed. Sci. Appl. 787:129-148(1993); [Pubmed: 12659738]
LinkTp: Explicit
Server: http://compluyeast2dpage.dacya.ucm.es/
Db_URL: http://compluyeast2dpage.dacya.ucm.es/cgi-bin/2d/2d.cgi?ac=%s
Cat : 2D gel databases
AC : DB-0156
Abbrev: ConoServer
Name : ConoServer: Cone snail toxin database
Ref : Bioinformatics 1:24:445-446(2008); [Pubmed: 18065428] [Article from publisher]
LinkTp: Explicit
Server: http://www.conoserver.org/
Db_URL: http://www.conoserver.org/?page=card&table=protein&id=%s
Cat : Organism-specific databases
AC : DB-0140
Abbrev: CTD
Name : Comparative Toxicogenomics Database
Ref : Nucleic Acids Res. 37:D786-D792(2009); [Pubmed: 18782832] [Article from publisher]
LinkTp: Explicit
Server: http://ctd.mdibl.org
Db_URL: http://ctd.mdibl.org/detail.go?type=gene&db=GENE&acc=%s
Cat : Organism-specific databases
AC : DB-0012
Abbrev: CYGD
Name : Comprehensive Yeast Genome Database
Ref : Nucleic Acids Res. 33:D364-D368(2005); [Pubmed: 15608217] [Article from publisher]
LinkTp: Explicit
Server: http://mips.gsf.de/genre/proj/yeast
Db_URL: http://mips.gsf.de/genre/proj/yeast/singleGeneReport.html?entry=%s
Cat : Organism-specific databases
AC : DB-0013
Abbrev: dbSNP
Name : Database of single nucleotide polymorphism
Ref : Nucleic Acids Res. 35:D5-12(2007); [Pubmed: 17170002] [Article from publisher]
LinkTp: Explicit
Server: http://www.ncbi.nlm.nih.gov/SNP/
Db_URL: http://www.ncbi.nlm.nih.gov/SNP/snp_ref.cgi?type=rs&rs=%s
Cat : Polymorphism databases
AC : DB-0014
Abbrev: DDBJ
Name : DNA Data Bank of Japan; a nucleotide sequence database
Ref : Nucleic Acids Res. 35:D13-D15(2007); [Pubmed: 17108353] [Article from publisher]
LinkTp: Implicit; All UniProtKB entries with >=1 EMBL Xref
Server: http://www.ddbj.nig.ac.jp/
Db_URL: http://getentry.ddbj.nig.ac.jp/search/get_entry?accnumber=%s
Cat : Sequence databases
AC : DB-0015
Abbrev: dictyBase
Name : Dictyostelium discoideum online informatics resource
Ref : Nucleic Acids Res. 34:D423-D427(2006); [Pubmed: 16381903] [Article from publisher]
LinkTp: Explicit
Server: http://dictybase.org/
Db_URL: http://dictybase.org/db/cgi-bin/gene_page.pl?primary_id=%s
Cat : Organism-specific databases
AC : DB-0016
Abbrev: DIP
Name : Database of interacting proteins
Ref : Nucleic Acids Res. 32:D449-D451(2004); [Pubmed: 14681454] [Article from publisher]
LinkTp: Explicit
Server: http://dip.doe-mbi.ucla.edu/
Db_URL: http://dip.doe-mbi.ucla.edu/dip/Browse.cgi?ID=%s
Cat : Protein-protein interaction databases
AC : DB-0017
Abbrev: DisProt
Name : Database of protein disorder
Ref : Bioinformatics 21:137-140(2005); [Pubmed: 15310560] [Article from publisher]
LinkTp: Explicit
Server: http://www.disprot.org/
Db_URL: http://www.disprot.org/protein.php?id=%s
Cat : 3D structure databases
AC : DB-0166
Abbrev: DMDM
Name : Domain mapping of disease mutations (DMDM)
Ref : Bioinformatics 26:19:2458-2459(2010); [Pubmed: 20685956] [Article from publisher]
LinkTp: Explicit
Server: http://bioinf.umbc.edu/dmdm/
Db_URL: http://bioinf.umbc.edu/dmdm/gene_prot_page.php?search_type=protein&id=%s
Cat : Polymorphism databases
AC : DB-0167
Abbrev: DNASU
Name : The DNASU plasmid repository
Ref : J Struct Funct Genomics. 2011 Jul;12(2):55-62; [Pubmed: 21360289]
LinkTp: Explicit
Server: http://dnasu.asu.edu
Db_URL: http://dnasu.asu.edu/DNASU/AdvancedSearch.do?species=All&geneNameOp=equal+to&geneName=%s
Cat : Protocols and materials databases
AC : DB-0018
Abbrev: DOSAC-COBS-2DPAGE
Name : DOSAC-COBS 2D-PAGE database
LinkTp: Explicit
Server: http://www.dosac.unipa.it/2d/
Db_URL: http://www.dosac.unipa.it/cgi-bin/2d/2d.cgi?ac=%s
Cat : 2D gel databases
AC : DB-0019
Abbrev: DrugBank
Name : Drug and drug target database
Ref : Nucleic Acids Res. 34:D668-D672(2006); [Pubmed: 16381955] [Article from publisher]
LinkTp: Explicit
Server: http://www.drugbank.ca/
Db_URL: http://www.drugbank.ca/drugs/%s
Cat : Other
AC : DB-0020
Abbrev: EchoBASE
Name : EchoBASE - an integrated post-genomic database for E. coli
Ref : Nucleic Acids Res. 33:D329-D333(2005); [Pubmed: 15608209] [Article from publisher]
LinkTp: Explicit
Server: http://www.york.ac.uk/res/thomas/
Db_URL: http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=%s
Cat : Organism-specific databases
AC : DB-0021
Abbrev: EcoGene
Name : Escherichia coli strain K12 genome database
Ref : Nucleic Acids Res. 28:60-64(2000); [Pubmed: 10592181]
LinkTp: Explicit
Server: http://www.ecogene.org/
Db_URL: http://www.ecogene.org/gene/%s
Cat : Organism-specific databases
AC : DB-0152
Abbrev: eggNOG
Name : evolutionary genealogy of genes: Non-supervised Orthologous Groups
Ref : Nucleic Acids Res. 38:D190-D195(2010); [Pubmed: 19900971] [Article from publisher]
LinkTp: Explicit
Server: http://eggnog.embl.de/
Db_URL: http://eggnog.embl.de/uniprot=%s
Cat : Phylogenomic databases
AC : DB-0022
Abbrev: EMBL
Name : EMBL nucleotide sequence database
Ref : Nucleic Acids Res. 35:D16-D20(2007); [Pubmed: 17148479] [Article from publisher]
LinkTp: Explicit
Server: http://www.ebi.ac.uk/ena/
Db_URL: http://www.ebi.ac.uk/ena/data/view/%s
Cat : Sequence databases
AC : DB-0023
Abbrev: Ensembl
Name : Ensembl eukaryotic genome annotation project
Ref : Nucleic Acids Res. 36:D707-D714(2008); [Pubmed: 18000006] [Article from publisher]
LinkTp: Explicit
Server: http://www.ensembl.org/
Db_URL: http://www.ensembl.org/id/%s
Cat : Genome annotation databases
AC : DB-0147
Abbrev: EnsemblBacteria
Name : EnsemblBacteria
Ref : Nucleic Acids Res. 38:D563-D569(2010); [Pubmed: 19884133] [Article from publisher]
LinkTp: Explicit
Server: http://bacteria.ensembl.org/
Db_URL: http://www.ensemblgenomes.org/id/%s
Cat : Genome annotation databases
AC : DB-0148
Abbrev: EnsemblFungi
Name : EnsemblFungi
Ref : Nucleic Acids Res. 38:D563-D569(2010); [Pubmed: 19884133] [Article from publisher]
LinkTp: Explicit
Server: http://fungi.ensembl.org/
Db_URL: http://www.ensemblgenomes.org/id/%s
Cat : Genome annotation databases
AC : DB-0149
Abbrev: EnsemblMetazoa
Name : EnsemblMetazoa
Ref : Nucleic Acids Res. 38:D563-D569(2010); [Pubmed: 19884133] [Article from publisher]
LinkTp: Explicit
Server: http://metazoa.ensembl.org/
Db_URL: http://www.ensemblgenomes.org/id/%s
Cat : Genome annotation databases
AC : DB-0150
Abbrev: EnsemblPlants
Name : EnsemblPlants
Ref : Nucleic Acids Res. 38:D563-D569(2010); [Pubmed: 19884133] [Article from publisher]
LinkTp: Explicit
Server: http://plants.ensembl.org/
Db_URL: http://www.ensemblgenomes.org/id/%s
Cat : Genome annotation databases
AC : DB-0151
Abbrev: EnsemblProtists
Name : EnsemblProtists
Ref : Nucleic Acids Res. 38:D563-D569(2010); [Pubmed: 19884133] [Article from publisher]
LinkTp: Explicit
Server: http://protists.ensembl.org/
Db_URL: http://www.ensemblgenomes.org/id/%s
Cat : Genome annotation databases
AC : DB-0024
Abbrev: ENZYME
Name : Enzyme nomenclature database
Ref : Nucleic Acids Res. 28:304-305(2000); [Pubmed: 10592255]
LinkTp: Implicit; All UniProtKB/Swiss-Prot entries that contain >=1 EC numbers in their description lines
Server: http://enzyme.expasy.org/
Cat : Enzyme and pathway databases
AC : DB-0025
Abbrev: euHCVdb
Name : European Hepatitis C Virus database
Ref : Nucleic Acids Res. 35:D363-D366(2007); [Pubmed: 17142229] [Article from publisher]
LinkTp: Explicit
Server: http://euhcvdb.ibcp.fr/euHCVdb/
Db_URL: http://euhcvdb.ibcp.fr/euHCVdb/do/displayHCVEntry?primaryAC=%s
Cat : Organism-specific databases
AC : DB-0153
Abbrev: EuPathDB
Name : Eukaryotic Pathogen Database Resources
Ref : Nucleic Acids Res. D415-D419(2009); [Pubmed: 19914931] [Article from publisher]
LinkTp: Explicit
Server: http://www.eupathdb.org/
Db_URL: http://www.eupathdb.org/gene/%s
Cat : Organism-specific databases
AC : DB-0168
Abbrev: EvolutionaryTrace
Name : Relative evolutionary importance of amino acids within a protein sequence.
LinkTp: Explicit
Server: http://mammoth.bcm.tmc.edu/ETserver.html
Db_URL: http://mammoth.bcm.tmc.edu/cgi-bin/report_maker_ls/uniprotTraceServerResults.pl?identifier=%s
Cat : Other
AC : DB-0026
Abbrev: FlyBase
Name : Drosophila genome database
Ref : Nucleic Acids Res. 35:D486-D491(2007); [Pubmed: 17099233] [Article from publisher]
LinkTp: Explicit
Server: http://flybase.org/
Db_URL: http://flybase.org/reports/%s.html
Note : Obsolete abbreviation: DMAP
Cat : Organism-specific databases
AC : DB-0027
Abbrev: GenAtlas
Name : GenAtlas: human gene database
Ref : C. R. Acad. Sci. III, Sci. Vie 321:805-817(1998); [Pubmed: 9835018]
LinkTp: Implicit; Human sequence entries with >=1 gene name and >=1 HGNC X-ref
Server: http://genatlas.medecine.univ-paris5.fr/
Db_URL: http://genatlas.medecine.univ-paris5.fr/fiche.php?symbol=%s
Cat : Organism-specific databases
AC : DB-0028
Abbrev: GenBank
Name : GenBank nucleotide sequence database
Ref : Nucleic Acids Res. 35:D5-12(2007); [Pubmed: 17170002] [Article from publisher]
LinkTp: Implicit; All UniProtKB entries with >=1 EMBL Xref
Server: http://www.ncbi.nlm.nih.gov/
Db_URL: http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nuccore&id=%s
Cat : Sequence databases
AC : DB-0029
Abbrev: Gene3D
Name : Gene3D Structural and Functional Annotation of Protein Families
Ref : Nucleic Acids Res. 34:D281-D284(2006); [Pubmed: 16381865] [Article from publisher]
LinkTp: Explicit
Server: http://gene3d.biochem.ucl.ac.uk/Gene3D/
Db_URL: http://www.cathdb.info/superfamily/%s
Cat : Family and domain databases
AC : DB-0030
Abbrev: GeneCards
Name : GeneCards: human genes, protein and diseases
Ref : Bioinformatics 18:1542-1543(2002); [Pubmed: 12424129]
LinkTp: Explicit
Server: http://www.genecards.org/
Db_URL: http://www.genecards.org/cgi-bin/carddisp.pl?gc_id=%s
Cat : Organism-specific databases
AC : DB-0032
Abbrev: GeneFarm
Name : Structural and functional annotation of Arabidopsis thaliana gene and protein families
Ref : Nucleic Acids Res. 33:D641-D646(2005); [Pubmed: 15608279] [Article from publisher]
LinkTp: Explicit
Server: http://urgi.versailles.inra.fr/Genefarm/index.htpl
Db_URL: http://urgi.versailles.inra.fr/Genefarm/Gene/display_gene.htpl?GENE_ID=%s
Cat : Organism-specific databases
AC : DB-0118
Abbrev: GeneID
Name : Database of genes from NCBI RefSeq genomes
Ref : Nucleic Acids Res. 33:D54-D58(2005); [Pubmed: 15608257] [Article from publisher]
LinkTp: Explicit
Server: http://www.ncbi.nlm.nih.gov/sites/entrez?db=gene
Db_URL: http://www.ncbi.nlm.nih.gov/sites/entrez?db=gene&term=%s
Cat : Genome annotation databases
AC : DB-0162
Abbrev: GeneTree
Name : GeneTree
LinkTp: Explicit
Server: http://www.ensemblgenomes.org
Db_URL: http://www.ensemblgenomes.org/id-genetree/%s
Cat : Phylogenomic databases
AC : DB-0142
Abbrev: Genevestigator
Name : Genevestigator
Ref : Plant Physiol. 141:1164-1166(2006); [Pubmed: 16896229] [Article from publisher]
LinkTp: Explicit
Server: http://www.genevestigator.com
Db_URL: http://www.genevestigator.com/gv/directlink.jsp?geneIDs=%s&geneIDType=SwissProt
Cat : Gene expression databases
AC : DB-0157
Abbrev: GenoList
Name : GenoList Integrated Environment for the Analysis of Microbial Genomes
Ref : Nucleic Acids Res. 36:D469-D474(2008); [Pubmed: 18032431] [Article from publisher]
LinkTp: Explicit
Server: http://genodb.pasteur.fr/cgi-bin/WebObjects/GenoList.woa/
Db_URL: http://genodb.pasteur.fr/cgi-bin/WebObjects/GenoList.woa/wa/goToGene?accNum=%s
Note : Replaces BuruList, ListiList, MypuList, PhotoList, SagaList and SubtiList
Cat : Organism-specific databases
AC : DB-0169
Abbrev: GenomeRNAi
Name : Database of phenotypes from RNA interference screens in Drosophila and Homo sapiens.
Ref : Nucleic Acids Res. 38:D448-52(2009); [Pubmed: 19910367] [Article from publisher]
LinkTp: Explicit
Server: http://genomernai.de/GenomeRNAi/
Db_URL: http://genomernai.de/GenomeRNAi/genedetails/%s
Cat : Other
AC : DB-0035
Abbrev: GermOnline
Name : GermOnline - a gateway for gametogenesis
Ref : Nucleic Acids Res. 35:D457-D462(2007); [Pubmed: 17145711] [Article from publisher]
LinkTp: Explicit
Server: http://www.germonline.org/
Db_URL: http://www.germonline.org/%s/geneview?gene=%s
Cat : Gene expression databases
AC : DB-0036
Abbrev: GlycoSuiteDB
Name : GlycoSuiteDB; an annotated and curated relational database of glycan structures
Ref : Nucleic Acids Res. 31:511-513(2003); [Pubmed: 12520065]
LinkTp: Explicit
Server: http://glycosuitedb.expasy.org/
Db_URL: http://glycosuitedb.expasy.org/glycosuite/results?prot_swissprot=%s;results_index=protein;ig_hist=1
Cat : PTM databases
AC : DB-0037
Abbrev: GO
Name : Gene Ontology
Ref : Nucleic Acids Res. 36:D440-D444(2008); [Pubmed: 17984083] [Article from publisher]
LinkTp: Explicit
Server: http://www.geneontology.org/
Db_URL: http://www.ebi.ac.uk/QuickGO/GTerm?id=%s
Cat : Ontologies
AC : DB-0038
Abbrev: GPCRDB
Name : Information system for G protein-coupled receptors (GPCRs)
Ref : Nucleic Acids Res. 29:346-349(2001); [Pubmed: 11125133]
LinkTp: Implicit; All UniProtKB/Swiss-Prot entries that contains a CC line of the type:
"-!- SIMILARITY: Belongs to the G-protein coupled receptor ..."
Server: http://www.gpcr.org/7tm/
Db_URL: http://www.gpcr.org/7tm/proteins/%s
Cat : Protein family/group databases
AC : DB-0039
Abbrev: Gramene
Name : Gramene; a comparative mapping resource for grains
Ref : Nucleic Acids Res. 34:D717-D723(2006); [Pubmed: 16381966] [Article from publisher]
LinkTp: Explicit
Server: http://www.gramene.org/
Db_URL: http://www.gramene.org//db/protein/protein_search?acc=%s
Cat : Organism-specific databases
AC : DB-0040
Abbrev: H-InvDB
Name : H-Invitational Database, human transcriptome db
Ref : Gene 364:99-107(2005); [Pubmed: 16185827] [Article from publisher]
LinkTp: Explicit
Server: http://www.h-invitational.jp/
Db_URL: http://h-invitational.jp/hinv/spsoup/locus_view?hix_id=%s
Cat : Organism-specific databases
AC : DB-0041
Abbrev: HAMAP
Name : HAMAP database of protein families
Ref : Comput. Biol. Chem. 27:49-58(2003); [Pubmed: 12798039]
LinkTp: Explicit
Server: http://hamap.expasy.org/
Db_URL: http://hamap.expasy.org/unirule/%s
Cat : Family and domain databases
AC : DB-0042
Abbrev: HGNC
Name : Human Gene Nomenclature Database
Ref : Nucleic Acids Res. 34:D319-D321(2006); [Pubmed: 16381876] [Article from publisher]
LinkTp: Explicit
Server: http://www.genenames.org/
Db_URL: http://www.genenames.org/data/hgnc_data.php?hgnc_id=%s
Note : Obsolete abbreviation: Genew
Cat : Organism-specific databases
AC : DB-0044
Abbrev: HOGENOM
Name : The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms
Ref : Genome Res. 10:379-85(2000); [Pubmed: 10720578] [Article from publisher]
LinkTp: Explicit
Server: http://pbil.univ-lyon1.fr/databases/hogenom.php
Db_URL: http://pbil.univ-lyon1.fr/cgi-bin/acnuc-ac2tree?query=%u&db=HOGENOM
Cat : Phylogenomic databases
AC : DB-0045
Abbrev: HOVERGEN
Name : The HOVERGEN Database of Homologous Vertebrate Genes
Ref : Nucleic Acids Res. 22:2360-2365(1994); [Pubmed: 8036164] [Article from publisher]
LinkTp: Explicit
Server: http://pbil.univ-lyon1.fr/databases/hovergen.html
Db_URL: http://pbil.univ-lyon1.fr/cgi-bin/acnuc-ac2tree?query=%u&db=HOVERGEN
Cat : Phylogenomic databases
AC : DB-0046
Abbrev: HPA
Name : Human Protein Atlas
Ref : Mol. Cell. Proteomics 4:1920-1932(2005); [Pubmed: 16127175] [Article from publisher]
LinkTp: Explicit
Server: http://www.proteinatlas.org/
Db_URL: http://www.proteinatlas.org/tissue_profile.php?antibody_id=%s
Cat : Organism-specific databases
AC : DB-0049
Abbrev: HUGE
Name : Human Unidentified Gene-Encoded large proteins database
Ref : Nucleic Acids Res. 32:D502-D504(2004); [Pubmed: 14681467] [Article from publisher]
LinkTp: Implicit; Human sequence entries with KIAAnnnn in a GN line
Server: http://www.kazusa.or.jp/huge/
Db_URL: http://www.kazusa.or.jp/huge/gfpage/%s
Cat : Organism-specific databases
AC : DB-0050
Abbrev: IMGT
Name : ImMunoGeneTics db
Ref : Nucleic Acids Res. 34:D781-D784(2006); [Pubmed: 16381979] [Article from publisher]
LinkTp: Implicit; All entries with a KW "Immunoglobulin [CV] region" and >=1 EMBL X-ref
Server: http://imgt.cines.fr/
Db_URL: http://www.imgt.org/IMGTlect/?query=201+%s
Cat : Protein family/group databases
AC : DB-0146
Abbrev: InParanoid
Name : InParanoid: Eukaryotic Ortholog Groups
Ref : Nucleic Acids Res. 36:D263-D266(2008); [Pubmed: 18055500] [Article from publisher]
LinkTp: Explicit
Server: http://inparanoid.sbc.su.se/
Db_URL: http://inparanoid.sbc.su.se/cgi-bin/gene_search.cgi?id=%s
Cat : Phylogenomic databases
AC : DB-0051
Abbrev: IntAct
Name : Protein interaction database and analysis system
Ref : Nucleic Acids Res. 35:D561-D565(2007); [Pubmed: 17145710] [Article from publisher]
LinkTp: Explicit
Server: http://www.ebi.ac.uk/intact/
Db_URL: http://www.ebi.ac.uk/intact/pages/interactions/interactions.xhtml?query=%s
Cat : Protein-protein interaction databases
AC : DB-0052
Abbrev: InterPro
Name : Integrated resource of protein families, domains and functional sites
Ref : Nucleic Acids Res. 35:D224-D228(2007); [Pubmed: 17202162] [Article from publisher]
LinkTp: Explicit
Server: http://www.ebi.ac.uk/interpro/
Db_URL: http://www.ebi.ac.uk/interpro/IEntry?ac=%s
Cat : Family and domain databases
AC : DB-0132
Abbrev: IPI
Name : International Protein Index
Ref : Proteomics 4:1985-1988(2004); [Pubmed: 15221759] [Article from publisher]
LinkTp: Explicit
Server: http://www.ebi.ac.uk/IPI
Db_URL: http://www.ebi.ac.uk/Tools/dbfetch/dbfetch?db=ipi&id=%s
Cat : Sequence databases
AC : DB-0053
Abbrev: KEGG
Name : KEGG: Kyoto Encyclopedia of Genes and Genomes
Ref : Nucleic Acids Res. 34:D354-D357(2006); [Pubmed: 16381885] [Article from publisher]
LinkTp: Explicit
Server: http://www.genome.jp/kegg/
Db_URL: http://www.genome.jp/dbget-bin/www_bget?%s
Cat : Genome annotation databases
AC : DB-0164
Abbrev: KO
Name : KEGG Orthology (KO)
Ref : Nucleic Acids Res. 32:D277-D280(2004); [Pubmed: 14681412]
LinkTp: Explicit
Server: http://www.genome.jp/kegg/
Db_URL: http://www.genome.jp/dbget-bin/www_bget?ko:%s
Cat : Phylogenomic databases
AC : DB-0054
Abbrev: LegioList
Name : Legionella pneumophila genome database
Ref : BMC Genomics 6:14-14(2005); [Pubmed: 15698474] [Article from publisher]
LinkTp: Explicit
Server: http://genolist.pasteur.fr/LegioList/
Db_URL: http://genolist.pasteur.fr/LegioList/genome.cgi?external_query+%s
Cat : Organism-specific databases
AC : DB-0055
Abbrev: Leproma
Name : Mycobacterium leprae genome database
LinkTp: Explicit
Server: http://mycobrowser.epfl.ch/leprosy.html
Db_URL: http://mycobrowser.epfl.ch/leprosysearch.php?gene+name=%s
Cat : Organism-specific databases
AC : DB-0058
Abbrev: MaizeGDB
Name : Maize Genetics and Genomics Database
Ref : Nucleic Acids Res. 35:D895-D900(2007); [Pubmed: 17202174] [Article from publisher]
LinkTp: Explicit
Server: http://www.maizegdb.org/
Db_URL: http://www.maizegdb.org/cgi-bin/id_search.cgi?id=%s
Note : Obsolete abbreviation: MaizeDB
Cat : Organism-specific databases
AC : DB-0059
Abbrev: MEROPS
Name : MEROPS protease database
Ref : Nucleic Acids Res. 36:D320-D325(2008); [Pubmed: 17991683] [Article from publisher]
LinkTp: Explicit
Server: http://merops.sanger.ac.uk/
Db_URL: http://merops.sanger.ac.uk/cgi-bin/merops.cgi?id=%s
Cat : Protein family/group databases
AC : DB-0060
Abbrev: MGI
Name : Mouse genome database (MGD) from Mouse Genome Informatics (MGI)
Ref : Nucleic Acids Res. 35:D630-D637(2007); [Pubmed: 17135206] [Article from publisher]
LinkTp: Explicit
Server: http://www.informatics.jax.org/
Db_URL: http://www.informatics.jax.org/marker/%s
Note : Obsolete abbreviation: MGD
Cat : Organism-specific databases
AC : DB-0061
Abbrev: Micado
Name : Microbial advanced database
LinkTp: Implicit; All UniProtKB/Swiss-Prot entries with >=1 GenoList Xref where the gene name does not start with "Y"
Server: http://genome.jouy.inra.fr/cgi-bin/micado/index.cgi
Db_URL: http://genome.jouy.inra.fr/micado/gene.cgi?species=Bacillus+subtilis&gene=%s
Cat : Organism-specific databases
AC : DB-0062
Abbrev: MIM
Name : Online Mendelian Inheritance in Man (OMIM)
Ref : Nucleic Acids Res. 33:D514-D517(2005); [Pubmed: 15608251] [Article from publisher]
LinkTp: Explicit
Server: http://www.omim.org/
Db_URL: http://www.omim.org/entry/%s
Cat : Organism-specific databases
AC : DB-0158
Abbrev: MINT
Name : Molecular INTeraction database
Ref : Nucl. Acids Res. 38: D532-D539(2010); [Pubmed: 19897547] [Article from publisher]
LinkTp: Explicit
Server: http://mint.bio.uniroma2.it/mint/
Db_URL: http://mint.bio.uniroma2.it/mint/search/search.do?queryType=protein&interactorAc=%s
Cat : Protein-protein interaction databases
AC : DB-0063
Abbrev: ModBase
Name : Database of comparative protein structure models
Ref : Nucleic Acids Res. 34:D291-D295(2006); [Pubmed: 16381869] [Article from publisher]
LinkTp: Implicit; All UniProtKB entries
Server: http://modbase.compbio.ucsf.edu/modbase-cgi/index.cgi
Db_URL: http://salilab.org/modbase-cgi/model_search.cgi?searchkw=name&kword=%s
Cat : 3D structure databases
AC : DB-0175
Abbrev: mycoCLAP
Name : mycoCLAP, a database of fungal genes encoding lignocellulose-active proteins
Ref : Database (2011) 2011:bar020; [Pubmed: 21622642] [Article from publisher]
LinkTp: Explicit
Server: https://mycoclap.fungalgenomics.ca/mycoCLAP/
Db_URL: https://mycoclap.fungalgenomics.ca/mycoCLAP/clap/GeneView/%s
Cat : Protein family/group databases
AC : DB-0128
Abbrev: NextBio
Name : NextBio gene-centric data for human, mouse, rat, fly, worm and yeast
LinkTp: Explicit
Server: http://www.nextbio.com/
Db_URL: http://www.nextbio.com/b/home/home.nb?id=%s&type=feature
Cat : Other
AC : DB-0161
Abbrev: neXtProt
Name : neXtProt; the human protein knowledge platform
LinkTp: Explicit
Server: http://www.nextprot.org/
Db_URL: http://www.nextprot.org/entry/%s
Cat : Organism-specific databases
AC : DB-0067
Abbrev: OGP
Name : Oxford GlycoProteomics 2-DE database
LinkTp: Explicit
Server: http://proteomewww.bioch.ox.ac.uk/2d/2d.html
Db_URL: http://proteomewww.bioch.ox.ac.uk/cgi-bin/get-2d-entry?%s
Cat : 2D gel databases
AC : DB-0137
Abbrev: OMA
Name : Identification of Orthologs from Complete Genome Data
Ref : Bioinformatics 23:2180-2182(2007); [Pubmed: 17545180] [Article from publisher]
LinkTp: Explicit
Server: http://www.omabrowser.org
Db_URL: http://omabrowser.org/cgi-bin/gateway.pl?f=DisplayGroup&p1=%u
Cat : Phylogenomic databases
AC : DB-0068
Abbrev: Orphanet
Name : Orphanet; a database dedicated to information on rare diseases and orphan drugs
LinkTp: Explicit
Server: http://www.orpha.net/consor/cgi-bin/home.php?Lng=GB
Db_URL: http://www.orpha.net/consor/cgi-bin/OC_Exp.php?Lng=GB&Expert=%s
Cat : Organism-specific databases
AC : DB-0143
Abbrev: OrthoDB
Name : Database of Orthologous Groups
Ref : Nucleic Acids Res. 36:D271-D275(2008); [Pubmed: 17947323] [Article from publisher]
LinkTp: Explicit
Server: http://cegg.unige.ch/orthodb
Db_URL: http://cegg.unige.ch/orthodb/results?searchtext=%u
Cat : Phylogenomic databases
AC : DB-0069
Abbrev: PANTHER
Name : The PANTHER Classification System
Ref : Nucleic Acids Res. 35:D247-D252(2007); [Pubmed: 17130144] [Article from publisher]
LinkTp: Explicit
Server: http://www.pantherdb.org/
Db_URL: http://www.pantherdb.org/panther/family.do?clsAccession=%s
Cat : Family and domain databases
AC : DB-0134
Abbrev: Pathway_Interaction_DB
Name : NCI-Nature Pathway Interaction Database
Ref : Nucleic Acids Res. 37:D674-D679(2009); [Pubmed: 18832364] [Article from publisher]
LinkTp: Explicit
Server: http://pid.nci.nih.gov/
Db_URL: http://pid.nci.nih.gov/search/pathway_landing.shtml?pathway_id=%s&source=NCI-Nature%20curated&what=graphic&jpg=on&ppage=1
Cat : Enzyme and pathway databases
AC : DB-0165
Abbrev: PATRIC
Name : Pathosystems Resource Integration Center (PATRIC)
Ref : Nucleic Acids Res. 35:401-406 (2007); [Pubmed: 17142235] [Article from publisher]
LinkTp: Explicit
Server: http://www.patricbrc.org/
Db_URL: http://patricbrc.org/portal/portal/patric/Feature?cType=feature&cId=%s
Cat : Genome annotation databases
AC : DB-0173
Abbrev: PaxDb
Name : PaxDb, a database of protein abundance averages across all three domains of life.
Ref : Mol Cell Proteomics. 2012 Aug;11(8):492-500; [Pubmed: 22535208] [Article from publisher]
LinkTp: Explicit
Server: http://pax-db.org
Db_URL: http://pax-db.org/#!protein/%s
Cat : Proteomic databases
AC : DB-0070
Abbrev: PDB
Name : Protein Data Bank Europe
Ref : Nucleic Acids Res. 40:D445-D452(2012); [Pubmed: 22110033] [Article from publisher]
LinkTp: Explicit
Server: http://www.ebi.ac.uk/pdbe/
Db_URL: http://www.ebi.ac.uk/pdbe-srv/view/entry/%s
Cat : 3D structure databases
AC : DB-0172
Abbrev: PDBj
Name : Protein Data Bank Japan
Ref : Nucleic Acids Res. 40:D453-460(2012); [Pubmed: 21976737] [Article from publisher]
LinkTp: Implicit; All UniProtKB entries with >=1 PDB Xref
Server: http://www.pdbj.org/
Db_URL: http://service.pdbj.org/mine/summary/%s
Cat : 3D structure databases
AC : DB-0119
Abbrev: PDBsum
Name : PDBsum; at-a-glance overview of macromolecular structures
Ref : Nucleic Acids Res. 33:D266-D268(2005); [Pubmed: 15608193] [Article from publisher]
LinkTp: Explicit
Server: http://www.ebi.ac.uk/pdbsum/
Db_URL: http://www.ebi.ac.uk/pdbsum/%s
Cat : 3D structure databases
AC : DB-0071
Abbrev: PeptideAtlas
Name : PeptideAtlas
Ref : Nucleic Acids Res. 34:D655-D658(2006); [Pubmed: 16381952] [Article from publisher]
LinkTp: Explicit
Server: http://www.peptideatlas.org
Db_URL: https://db.systemsbiology.net/sbeams/cgi/PeptideAtlas/Search?action=GO&search_key=%s
Cat : Proteomic databases
AC : DB-0072
Abbrev: PeroxiBase
Name : PeroxiBase, a peroxidase database
LinkTp: Explicit
Server: http://peroxibase.toulouse.inra.fr/
Db_URL: http://peroxibase.toulouse.inra.fr/listing.php?action=view&id=%s
Cat : Protein family/group databases
AC : DB-0073
Abbrev: Pfam
Name : Pfam protein domain database
Ref : Nucleic Acids Res. 34:D247-D251(2006); [Pubmed: 16381856] [Article from publisher]
LinkTp: Explicit
Server: http://pfam.sanger.ac.uk/
Db_URL: http://pfam.sanger.ac.uk/family/%s
Cat : Family and domain databases
AC : DB-0074
Abbrev: PharmGKB
Name : The Pharmacogenetics and Pharmacogenomics Knowledge Base
Ref : Methods Mol. Biol. 311:179-191(2005); [Pubmed: 16100408]
LinkTp: Explicit
Server: http://www.pharmgkb.org
Db_URL: http://www.pharmgkb.org/do/serve?objId=%s&objCls=Gene
Cat : Organism-specific databases
AC : DB-0123
Abbrev: PhosphoSite
Name : Phosphorylation site database
Ref : Proteomics 6:1551-1561(2004); [Pubmed: 15174125] [Article from publisher]
LinkTp: Explicit
Server: http://www.phosphosite.org
Db_URL: http://www.phosphosite.org/uniprotAccAction.do?id=%s
Cat : PTM databases
AC : DB-0076
Abbrev: PhosSite
Name : Phosphorylation site database for Archaea and Bacteria
Ref : Proteomics 4:1562-1570(2004); [Pubmed: 15174126] [Article from publisher]
LinkTp: Explicit
Server: http://www.phosphorylation.biochem.vt.edu/
Db_URL: http://www.phosphorylation.biochem.vt.edu/xpd2.cfm?extf=accession&extref=%s
Cat : PTM databases
AC : DB-0144
Abbrev: PhylomeDB
Name : Database for complete collections of gene phylogenies
Ref : Nucleic Acids Res. 36:D491-D496(2008); [Pubmed: 17962297] [Article from publisher]
LinkTp: Explicit
Server: http://phylomedb.org/
Db_URL: http://phylomedb.org/?seqid=%s
Cat : Phylogenomic databases
AC : DB-0078
Abbrev: PIR
Name : Protein sequence database of the Protein Information Resource
LinkTp: Explicit
Server: http://pir.georgetown.edu/
Db_URL: http://pir.georgetown.edu/cgi-bin/nbrfget?uid=%s
Cat : Sequence databases
AC : DB-0079
Abbrev: PIRSF
Name : PIRSF; a whole-protein classification database
Ref : Nucleic Acids Res. 32:D112-D114(2004); [Pubmed: 14681371] [Article from publisher]
LinkTp: Explicit
Server: http://pir.georgetown.edu/pirsf/
Db_URL: http://pir.georgetown.edu/cgi-bin/ipcSF?id=%s
Cat : Family and domain databases
AC : DB-0138
Abbrev: PMAP-CutDB
Name : CutDB - Proteolytic event database
Ref : Nucleic Acids Res. 37611-D618(2009); [Pubmed: 18842634] [Article from publisher]
LinkTp: Explicit
Server: http://www.proteolysis.org/
Db_URL: http://substrate.burnham.org/lookup/uniprot/%s
Cat : Other
AC : DB-0031
Abbrev: PomBase
Name : Schizosaccharomyces pombe database
LinkTp: Explicit
Server: http://www.pombase.org/
Db_URL: http://www.pombase.org/spombe/result/%s
Cat : Organism-specific databases
AC : DB-0081
Abbrev: PptaseDB
Name : Prokaryotic Protein Phosphatase Database
LinkTp: Explicit
Server: http://www.phosphatase.biochem.vt.edu
Db_URL: http://www.phosphatase.biochem.vt.edu/p3d2.cfm?extf=accession&extref=%s
Cat : Protein family/group databases
AC : DB-0130
Abbrev: PRIDE
Name : PRoteomics IDEntifications database
Ref : Nucleic Acids Res. 36:878-883(2008); [Pubmed: 18033805] [Article from publisher]
LinkTp: Explicit
Server: http://www.ebi.ac.uk/pride
Db_URL: http://www.ebi.ac.uk/pride/searchSummary.do?queryTypeSelected=identification%20accession%20number&identificationAccessionNumber=%s
Cat : Proteomic databases
AC : DB-0082
Abbrev: PRINTS
Name : Protein Motif fingerprint database; a protein domain database
Ref : Nucleic Acids Res. 31:400-402(2003); [Pubmed: 12520033]
LinkTp: Explicit
Server: http://umber.sbs.man.ac.uk/dbbrowser/PRINTS/
Db_URL: http://umber.sbs.man.ac.uk/cgi-bin/dbbrowser/sprint/searchprintss.cgi?display_opts=Prints&category=None&queryform=false&prints_accn=%s
Note : Obsolete abbreviation: PRINT
Cat : Family and domain databases
AC : DB-0083
Abbrev: ProDom
Name : ProDom; a protein domain database
Ref : Nucleic Acids Res. 33:D212-D215(2005); [Pubmed: 15608179] [Article from publisher]
LinkTp: Explicit
Server: http://prodom.prabi.fr/prodom/current/html/home.php
Db_URL: http://prodom.prabi.fr/prodom/current/cgi-bin/request.pl?question=SPTR&query=%s
Cat : Family and domain databases
AC : DB-0124
Abbrev: ProMEX
Name : Protein Mass spectra EXtraction
Ref : BMC Bioinformatics 8:216-216(2007); [Pubmed: 17587460] [Article from publisher]
LinkTp: Explicit
Server: http://promex.pph.univie.ac.at/promex/
Db_URL: http://promex.pph.univie.ac.at/promex/?ac=%s
Cat : Proteomic databases
AC : DB-0084
Abbrev: PROSITE
Name : PROSITE; a protein domain and family database
Ref : Nucleic Acids Res. 34:D227-D230(2006); [Pubmed: 16381852] [Article from publisher]
LinkTp: Explicit
Server: http://prosite.expasy.org/
Db_URL: http://prosite.expasy.org/cgi-bin/prosite/get-prosite-raw.pl?%s
Cat : Family and domain databases
AC : DB-0154
Abbrev: ProtClustDB
Name : Entrez Protein Clusters
Ref : Nucleic Acids Res. 37:D216-D223(2009); [Pubmed: 18940865] [Article from publisher]
LinkTp: Explicit
Server: http://www.ncbi.nlm.nih.gov/sites/entrez?db=proteinclusters
Db_URL: http://www.ncbi.nlm.nih.gov/sites/entrez?Db=proteinclusters&Cmd=DetailsSearch&Term=%u
Cat : Phylogenomic databases
AC : DB-0159
Abbrev: ProteinModelPortal
Name : Protein Model Portal of the PSI-Nature Structural Biology Knowledgebase
Ref : J. Struct. Funct. Genomics 10:1-8(2009); [Pubmed: 19037750] [Article from publisher]
LinkTp: Explicit
Server: http://www.proteinmodelportal.org/
Db_URL: http://www.proteinmodelportal.org/query/uniprot/%s
Cat : 3D structure databases
AC : DB-0085
Abbrev: ProtoNet
Name : ProtoNet; Automatic hierarchical classification of proteins
Ref : Protein Sci. 15:1557-1562(2006); [Pubmed: 16672244] [Article from publisher]
LinkTp: Implicit; All UniProtKB entries
Server: http://www.protonet.cs.huji.ac.il/
Db_URL: http://www.protonet.cs.huji.ac.il/sp.php?prot=%s
Cat : Family and domain databases
AC : DB-0086
Abbrev: PseudoCAP
Name : Pseudomonas genome database
Ref : Nucleic Acids Res. 33:D338-D343(2005); [Pubmed: 15608211] [Article from publisher]
LinkTp: Explicit
Server: http://www.pseudomonas.com/
Db_URL: http://www.pseudomonas.com/getAnnotation.do?locusID=%s
Cat : Organism-specific databases
AC : DB-0171
Abbrev: RCSB PDB
Name : Protein Data Bank RCSB
Ref : Nucleic Acids Res. 34:D302-D305(2006); [Pubmed: 16381872] [Article from publisher]
LinkTp: Implicit; All UniProtKB entries with >=1 PDB Xref
Server: http://www.pdb.org/
Db_URL: http://www.pdb.org/pdb/explore/explore.do?pdbId=%s
Cat : 3D structure databases
AC : DB-0088
Abbrev: Reactome
Name : Reactome - a knowledgebase of biological pathways and processes
Ref : Nucleic Acids Res. 33:D428-D432(2005); [Pubmed: 15608231] [Article from publisher]
LinkTp: Explicit
Server: http://www.reactome.org/
Db_URL: http://www.reactome.org/cgi-bin/eventbrowser_st_id?ST_ID=%s
Note : Obsolete abbreviation: GK
Cat : Enzyme and pathway databases
AC : DB-0089
Abbrev: REBASE
Name : Restriction enzymes and methylases database
Ref : Nucleic Acids Res. 35:D269-D270(2007); [Pubmed: 17202163] [Article from publisher]
LinkTp: Explicit
Server: http://rebase.neb.com/
Db_URL: http://rebase.neb.com/rebase/enz/%s.html
Cat : Protein family/group databases
AC : DB-0117
Abbrev: RefSeq
Name : NCBI Reference Sequences
Ref : Nucleic Acids Res. 35:D61-D65(2007); [Pubmed: 17130148] [Article from publisher]
LinkTp: Explicit
Server: http://www.ncbi.nlm.nih.gov/RefSeq/
Db_URL: http://www.ncbi.nlm.nih.gov/protein/%s
Cat : Sequence databases
AC : DB-0090
Abbrev: REPRODUCTION-2DPAGE
Name : REPRODUCTION-2DPAGE
LinkTp: Explicit
Server: http://reprod.njmu.edu.cn/cgi-bin/2d/2d.cgi
Db_URL: http://reprod.njmu.edu.cn/cgi-bin/2d/2d.cgi?%s
Cat : 2D gel databases
AC : DB-0091
Abbrev: RGD
Name : Rat genome database
Ref : Nucleic Acids Res. 35:D658-D662(2007); [Pubmed: 17151068] [Article from publisher]
LinkTp: Explicit
Server: http://rgd.mcw.edu/
Db_URL: http://rgd.mcw.edu/tools/genes/genes_view.cgi?id=%s
Cat : Organism-specific databases
AC : DB-0092
Abbrev: Rouge
Name : Rodent Unidentified Gene-Encoded large proteins database
Ref : Nucleic Acids Res. 32:D502-D504(2004); [Pubmed: 14681467] [Article from publisher]
LinkTp: Implicit; Mouse sequence entries with KIAAnnnn in a GN line
Server: http://www.kazusa.or.jp/rouge/
Db_URL: http://www.kazusa.or.jp/rouge/gfpage/%s
Cat : Organism-specific databases
AC : DB-0177
Abbrev: SABIO-RK
Name : SABIO-RK : Biochemical Reaction Kinetics Database
Ref : Nucl. Acids Res. (2012) 40 (D1): D790-D796; [Pubmed: 22102587] [Article from publisher]
LinkTp: Explicit
Server: http://sabiork.h-its.org/
Db_URL: http://sabiork.h-its.org/newSearch?q=UniProtKB_AC:%s
Cat : Enzyme and pathway databases
AC : DB-0163
Abbrev: SBKB
Name : The Structural Biology Knowledgebase
Ref : J Struct Funct Genomics. 2011 Jul;12(2):45-54; [Pubmed: 21472436]
LinkTp: Implicit; All UniProtKB entries
Server: http://sbkb.org/
Db_URL: http://sbkb.org/kb/searchr.jsp?type=uid&clientname=UniProt&q=%s
Cat : Protocols and materials databases
AC : DB-0095
Abbrev: SGD
Name : Saccharomyces Genome Database
Ref : Nucleic Acids Res. 35:D468-D471(2007); [Pubmed: 17142221] [Article from publisher]
LinkTp: Explicit
Server: http://www.yeastgenome.org/
Db_URL: http://www.yeastgenome.org/cgi-bin/locus.fpl?dbid=%s
Cat : Organism-specific databases
AC : DB-0179
Abbrev: SignaLink
Name : SignaLink: a signaling pathway resource with multi-layered regulatory networks
Ref : Bioinformatics 26:2042-2050(2010); [Pubmed: 20542890] [Article from publisher]
LinkTp: Explicit
Server: http://signalink.org/
Db_URL: http://signalink.org/protein/%s
Cat : Enzyme and pathway databases
AC : DB-0097
Abbrev: SMART
Name : Simple Modular Architecture Research Tool; a protein domain database
Ref : Nucleic Acids Res. 34:D257-D260(2006); [Pubmed: 16381859] [Article from publisher]
LinkTp: Explicit
Server: http://smart.embl.de/
Db_URL: http://smart.embl.de/smart/do_annotation.pl?DOMAIN=%s
Cat : Family and domain databases
AC : DB-0098
Abbrev: SMR
Name : SWISS-MODEL Repository - a database of annotated 3D protein structure models
Ref : Nucleic Acids Res. 34:D315-D318(2006); [Pubmed: 16381875] [Article from publisher]
LinkTp: Explicit
Server: http://swissmodel.expasy.org/repository/
Db_URL: http://swissmodel.expasy.org/repository/smr.php?sptr_ac=%s
Cat : 3D structure databases
AC : DB-0099
Abbrev: SOURCE
Name : The Stanford Online Universal Resource for Clones and ESTs
LinkTp: Implicit; All human and mouse entries with >=1 gene name and >= 1 MIM or MGI X-ref
Server: http://smd.stanford.edu/cgi-bin/source/sourceSearch
Db_URL: http://smd.stanford.edu/cgi-bin/source/sourceResult?criteria=%s&choice=Gene&option=Symbol&organism=%s
Cat : Other
AC : DB-0141
Abbrev: STRING
Name : STRING: functional protein association networks
Ref : Nucleic Acids Res. 37:D412-D416(2009); [Pubmed: 18940858] [Article from publisher]
LinkTp: Explicit
Server: http://string-db.org
Db_URL: http://string-db.org/newstring_cgi/show_network_section.pl?identifier=%s
Cat : Protein-protein interaction databases
AC : DB-0155
Abbrev: SUPFAM
Name : Superfamily database of structural and functional annotation
Ref : J. Mol. Biol. 313:903-919(2001); [Pubmed: 11697912] [Article from publisher]
LinkTp: Explicit
Server: http://supfam.org
Db_URL: http://supfam.cs.bris.ac.uk/SUPERFAMILY/cgi-bin/scop.cgi?ipid=%s
Cat : Family and domain databases
AC : DB-0101
Abbrev: SWISS-2DPAGE
Name : Two-dimensional polyacrylamide gel electrophoresis database from the Geneva University Hospital
Ref : Proteomics 4:2352-2356(2004); [Pubmed: 15274128] [Article from publisher]
LinkTp: Explicit
Server: http://world-2dpage.expasy.org/swiss-2dpage/
Db_URL: http://world-2dpage.expasy.org/swiss-2dpage/%s
Cat : 2D gel databases
AC : DB-0102
Abbrev: TAIR
Name : The Arabidopsis Information Resource
Ref : Nucleic Acids Res. 31:224-228(2003); [Pubmed: 12519987]
LinkTp: Explicit
Server: http://www.arabidopsis.org/
Db_URL: http://www.arabidopsis.org/servlets/TairObject?type=locus&name=%s
Cat : Organism-specific databases
AC : DB-0135
Abbrev: TCDB
Name : Transport Classification Database
Ref : Nucleic Acids Res. 37:274-278(2009); [Pubmed: 19022853] [Article from publisher]
LinkTp: Explicit
Server: http://www.tcdb.org/
Db_URL: http://www.tcdb.org/search/result.php?tc=%s
Cat : Protein family/group databases
AC : DB-0104
Abbrev: TIGRFAMs
Name : TIGRFAMs; a protein family database
Ref : Nucleic Acids Res. 35:D260-D264(2007); [Pubmed: 17151080] [Article from publisher]
LinkTp: Explicit
Server: http://www.jcvi.org/cms/research/projects/tigrfams/overview/
Db_URL: http://www.jcvi.org/cgi-bin/tigrfams/HmmReportPage.cgi?acc=%s
Cat : Family and domain databases
AC : DB-0106
Abbrev: TubercuList
Name : Mycobacterium tuberculosis strain H37Rv genome database
LinkTp: Explicit
Server: http://tuberculist.epfl.ch
Db_URL: http://tuberculist.epfl.ch/quicksearch.php?gene+name=%s
Cat : Organism-specific databases
AC : DB-0047
Abbrev: UCD-2DPAGE
Name : University College Dublin 2-DE Proteome Database
LinkTp: Explicit
Server: http://proteomics-portal.ucd.ie:8082/cgi-bin/2d/2d.cgi
Db_URL: http://proteomics-portal.ucd.ie:8082/cgi-bin/2d/2d.cgi?ac=%s
Note : Replaces HSC-2DPAGE
Cat : 2D gel databases
AC : DB-0139
Abbrev: UCSC
Name : UCSC genome browser
Ref : Nucleic Acids Res. 37755-D761(2009); [Pubmed: 18996895] [Article from publisher]
LinkTp: Explicit
Server: http://genome.ucsc.edu
Db_URL: http://genome.ucsc.edu/cgi-bin/hgGene?hgg_gene=%s1&org=%s2
Cat : Genome annotation databases
AC : DB-0107
Abbrev: UniGene
Name : UniGene gene-oriented nucleotide sequence clusters
Ref : Nucleic Acids Res. 35:D5-12(2007); [Pubmed: 17170002] [Article from publisher]
LinkTp: Explicit
Server: http://www.ncbi.nlm.nih.gov/sites/entrez?db=UniGene
Db_URL: http://www.ncbi.nlm.nih.gov/UniGene/clust.cgi?ORG=%s1&CID=%s2
Cat : Sequence databases
AC : DB-0170
Abbrev: UniPathway
Name : UniPathway: a resource for the exploration and annotation of metabolic pathways
Ref : Nucleic Acids Res. 40:D761-9(2012); [Pubmed: 22102589] [Article from publisher]
LinkTp: Explicit
Server: http://www.unipathway.org
Db_URL: http://www.unipathway.org?upid=%s&entryac=%u
Cat : Enzyme and pathway databases
AC : DB-0120
Abbrev: VectorBase
Name : Invertebrate Vectors of Human Pathogens
Ref : Nucleic Acids Res. 35:D503-D505(2007); [Pubmed: 17145709] [Article from publisher]
LinkTp: Explicit
Server: http://www.vectorbase.org/
Db_URL: http://www.vectorbase.org/Genome/BRCGene/?gene=%s
Cat : Genome annotation databases
AC : DB-0121
Abbrev: World-2DPAGE
Name : The World-2DPAGE database
Ref : J. Proteomics 71:245-248(2008); [Pubmed: 18617148] [Article from publisher]
LinkTp: Explicit
Server: http://world-2dpage.expasy.org/repository/
Db_URL: http://world-2dpage.expasy.org/repository/%s
Cat : 2D gel databases
AC : DB-0110
Abbrev: WormBase
Name : WormBase
Ref : Nucleic Acids Res. 35:D506-D510(2007); [Pubmed: 17099234] [Article from publisher]
LinkTp: Explicit
Server: http://www.wormbase.org/
Db_URL: http://www.wormbase.org/db/seq/sequence?name=%s;class=Transcript
Cat : Organism-specific databases
AC : DB-0129
Abbrev: Xenbase
Name : Xenopus laevis and tropicalis biology and genomics resource
Ref : Nucleic Acids Res. 36:D761-D767(2008); [Pubmed: 17984085] [Article from publisher]
LinkTp: Explicit
Server: http://www.xenbase.org/
Db_URL: http://www.xenbase.org/gene/showgene.do?method=display&geneId=%s
Cat : Organism-specific databases
AC : DB-0113
Abbrev: ZFIN
Name : Zebrafish Information Network genome database
Ref : Nucleic Acids Res. 34:D581-D585(2006); [Pubmed: 16381936] [Article from publisher]
LinkTp: Explicit
Server: http://zfin.org/
Db_URL: http://zfin.org/cgi-bin/webdriver?MIval=aa-markerview.apg&OID=%s
Cat : Organism-specific databases
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