Gene Data base Publications

Molecular Biology Database abbrebiations for Publications

In Publications you ofter will find references of old Databases. Now most databases are absorbed in BLAST and NCBI.

However some of these database contain unique sequence alignments.

16S and 23S rRNA Mutation Database16S and 23S ribosomal RNA mutationshttp://ribosome.fandm.edu
2D-PAGEProteome database system for microbial researchhttp://www.mpiib-berlin.mpg.de/2D-PAGE
3D rRNA modification mapsLocations of modified rRNA nucleotides within the 3D structure of the ribosomehttp://people.biochem.umass.edu/fournierlab/3dmodmap/
3D-GenomicsStructural annotations for complete proteomeshttp://www.sbg.bio.ic.ac.uk/3dgenomics
3DID3D interacting domainshttp://gatealoy.pcb.ub.es/3did/
3DID3D interacting domains: Domain-domain interactions in proteins with known 3D structureshttp://3did.embl.de/
3D-InterologsProtein-protein interactions in various evolutionary lineageshttp://gemdock.life.nctu.edu.tw/3D-Interologs
4DXpressDatabase for cross species expression pattern comparisonshttp://ani.embl.de/4DXpress
5S rRNA Database5S rRNA sequenceshttp://biobases.ibch.poznan.pl/5SData/
5’SAGE5′-end serial analysis of gene expressionhttp://5sage.gi.k.u-tokyo.ac.jp/
AAindexPhysicochemical properties of amino acidshttp://www.genome.ad.jp/aaindex/
AANTAmino Acid – Nucleotide interaction databasehttp://aant.icmb.utexas.edu/
ABAAscidian body atlas: digital 3D model of ascidian developmenthttp://ciona.lab.nig.ac.jp/ascidian/top.html
ABCdbArchaeal and bacterial ABC transporter databasehttp://www-abcdb.biotoul.fr
ABSAnnotated regulatory binding sites from orthologous promotershttp://genome.imim.es/datasets/abs2005/
ACeDBC. elegans, S. pombe, and human genomic informationhttp://www.acedb.org/
ACLAMEA classification of genetic mobile elementshttp://aclame.ulb.ac.be/
ACTIVITYFunctional DNA/RNA site activityhttp://wwwmgs.bionet.nsc.ru/mgs/systems/activity/
ADDADatabase of protein domain classificationhttp://ekhidna.biocenter.helsinki.fi/sqgraph/pairsdb
AffinDBAffinity data for protein-ligand complexeshttp://www.agklebe.de/affinity
AgBaseGO annotations for agriculturally important plants and animalshttp://www.agbase.msstate.edu/
AGDAshbya gossypii genome databasehttp://agd.unibas.ch
AGNSArabidopsis GeneNet supplementaryhttp://wwwmgs.bionet.nsc.ru/agns/
AGRISArabidopsis gene regulatory information serverhttp://arabidopsis.med.ohio-state.edu
ALFREDAllele frequencies and DNA polymorphismshttp://alfred.med.yale.edu
AllGenesHuman and mouse gene, transcript and protein annotationhttp://www.allgenes.org
ALPSbaseAutoimmune lymphoproliferative syndrome databasehttp://research.nhgri.nih.gov/ALPS/
AlterORFDatabase of alternate open reading frameshttp://www.cienciavida.cl/alterorf/
AlzGeneCandidate genes for Alzheimer diseasehttp://www.alzgene.org
aMAZEA system for the annotation, management, and analysis of biochemical and signalling pathway networkshttp://www.scmbb.ulb.ac.be/amaze/
Aminoacyl-tRNA synthetases databaseAminoacyl-tRNA synthetase databasehttp://rose.man.poznan.pl/aars/index.html
AMPDBArabidopsis Mitochondrial Protein Databasehttp://www.plantenergy.uwa.edu.au/applications/ampdb/index.html
Androgen Receptor Gene Mutations DBMutations in the androgen receptor genehttp://www.mcgill.ca/androgendb/
AngioDBDatabase of angiogenesis and angiogenesis-related moleculeshttp://angiodb.snu.ac.kr/
Animal Genome Size DatabaseGenome sizes of vertebrates and invertebrateshttp://www.genomesize.com
Animal Toxin DBDatabase of animal toxinshttp://protchem.hunnu.edu.cn/toxin
AnimalQTLdbQuantitative trait loci in livestock animalshttp://www.animalgenome.org/QTLdb/
AntiJenQuantitative binding data for peptides and proteins of immunological interesthttp://www.jenner.ac.uk/AntiJen
ANTIMICDatabase of natural antimicrobial peptideshttp://research.i2r.a-star.edu.sg/Templar/DB/ANTIMIC/
AOBaseAntisense oligonucleotide selection and designhttp://www.bioit.org.cn/ao/aobase
APDAntimicrobial Peptide Databasehttp://aps.unmc.edu/AP/main.php
AphidBaseGenomic database for the pea aphid (Acyrthosiphon pisum)http://www.aphidbase.com/
ApiDBUnified resource for various apicomplexan specieshttp://ApiDB.org
ApiDotsEST sequences from various Apicomplexan parasiteshttp://www.cbil.upenn.edu/apidots/
AppaDBDatabase on the nematode Pristionchus pacificushttp://appadb.eb.tuebingen.mpg.de
Aptamer DatabaseSmall RNA/DNA molecules binding nucleic acids, proteinshttp://aptamer.icmb.utexas.edu
Arabidopsis MPSSArabidopsis gene expression detected by massively parallel signature sequencinghttp://mpss.udel.edu/at/
Arabidopsis Nucleolar Protein DatabaseComparative analysis of human and Arabidopsis nucleolar proteomeshttp://bioinf.scri.sari.ac.uk/cgi-bin/atnopdb/proteome_comparison
Arabidopsis Small RNA ProjectArabidopsis Small RNA sequenceshttp://asrp.cgrb.oregonstate.edu/
ARAMEMNONArabidopsis thaliana membrane proteins and transportershttp://aramemnon.botanik.uni-koeln.de
ArchDBAutomated classification of protein loop structureshttp://gurion.imim.es/archdb
AREDAU-rich element-containing mRNAshttp://brp.kfshrc.edu.sa/ARED
ArgonauteGene regulation by mammalian microRNAshttp://argonaute.uni-hd.de
ArkDBGenome databases for farm and other animalshttp://www.thearkdb.org/
ArrayExpressPublic collection of microarray gene expression datahttp://www.ebi.ac.uk/arrayexpress
ARTADEdbArabidopsis tiling-array-based detection of exonshttp://omicspace.riken.jp/ARTADE/
ASAPA Systematic Annotation Packagehttps://asap.ahabs.wisc.edu/annotation/php/ASAP1.htm
ASAP IIComparative analysis of alternative splicing in animal specieshttp://bioinfo.mbi.ucla.edu/ASAP2/
ASCActive Sequence Collectionhttp://bioinformatica.isa.cnr.it/ASC/
ASDBAlternative Splicing Database: protein products and expression patterns of alternatively-spliced geneshttp://hazelton.lbl.gov/~teplitski/alt/
ASHESdbAlternatively Spliced Human genes by Exon Skippinghttp://sege.ntu.edu.sg/wester/ashes/
ASPDArtificial selected proteins/peptides databasehttp://wwwmgs.bionet.nsc.ru/mgs/gnw/aspd/
ASTDAlternative Splicing and Transcript Diversity databasehttp://www.ebi.ac.uk/astd/
ASTRALSequences of domains of known structure, selected subsets and sequence-structure correspondenceshttp://astral.berkeley.edu/
ATDAlternate transcript diversity databaseSuperseded by ASTD, no. 28
AtGDBArabidopsis thaliana genome databasehttp://www.plantgdb.org/AtGDB
AthaMapGenome-wide map of putative transcription factor binding sites in Arabidopsis thalianahttp://www.athamap.de/
Atlas of Genetics and Cytogenetics in Onco-logy and HaematologyCancer related genes, chromosomal abnormalities in oncology and haematology, and cancer-prone diseaseshttp://atlasgeneticsoncology.org/
AtPIDArabidopsis thaliana Protein Interactome Databasehttp://atpid.biosino.org/
ATTED-IICoexpressed gene sets and gene regulators in Arabidopsishttp://www.atted.bio.titech.ac.jp/
AutoPSIAutomated structural classification of protein sequenceshttp://www.bio.ifi.lmu.de/AutoPSIDB
AxeldbGene expression in Xenopus laevishttp://www.dkfz.de/en/mol_embryology/axeldb.html
BacMapPicture atlas of annotated bacterial genomeshttp://wishart.biology.ualberta.ca/BacMap/
BacMapPicture atlas of annotated bacterial genomeshttp://wishart.biology.ualberta.ca/BacMap
Bacteriome.orgProtein interaction database for E. colihttp://www.bacteriome.org
BACTIBASEDatabase of bacteriocin natural antimicrobial peptideshttp://www.pfba-lab.org/bactibase
BacTregulatorsTranscriptional regulators of AraC and TetR familiesNo longer maintained
BAliBASEBenchmark database for comparison of multiple sequence alignmentshttp://www-igbmc.u-strasbg.fr/BioInfo/BAliBASE2/index.html
BANMOKIDatabase of bacterial nucleoside monophosphate kinaseshttp://www.ces.clemson.edu/compbio/databases/kinases
BarleyBaseExpression profiling of plant genomeshttp://www.barleybase.org/
BayGenomicsPublicly available mouse gene trap cell linesSuperseded by Gene Trap database, no. 827
BCIpepDatabase of B-cell epitopeshttp://bioinformatics.uams.edu/mirror/bcipep/
BCSDB/GlycoscienceBacterial Carbohydrate Structure DataBasehttp://www.glyco.ac.ru/bcsdb/start.shtml
BeetleBaseGenome database of the beetle Tribolium castaneumhttp://www.bioinformatics.ksu.edu/BeetleBase/
BenchmarkProtein classification benchmark collection: training/test sets for machine learninghttp://net.icgeb.org/benchmark/
BGEDBrain Gene Expression Databasehttp://genome.mc.pref.osaka.jp/BGED/
BGI-RISeBeijing Genomics Institute Rice Information Systemhttp://rise.genomics.org.cn/
BINDBiomolecular interaction network databaseNo longer free for all
Binding MOADBinding Mother of All Databases: protein-ligand crystal structureshttp://www.BindingMOAD.org
BindingDBBinding affinities of protein-ligand and other complexeshttp://www.bindingdb.org/bind/index.jsp
BioCartaOnline maps of metabolic and signaling pathwayshttp://www.biocarta.com/genes/allPathways.asp
BioCartaOnline maps of metabolic and signaling pathwayshttp://www.biocarta.com/genes/allPathways.asp
BioCycPathway/genome databases for many bacteriahttp://biocyc.org/
Biodefense Proteomics Resource CenterProteomics and host-pathogen interactions for biodefense-related microorganismshttp://www.proteomicsresource.org/default.aspx
Biodegradative Strain DatabaseMicroorganisms that can degrade aromatic and other organic compoundshttp://bsd.cme.msu.edu/
BioGRIDGenetic and physical interactions in yeast, worm and flyhttp://www.thebiogrid.org
BioHealthBaseHost-pathogen interactions of influenza virushttp://dev.biohealthbase.org/GSearch/PrototypeIndex.jsp
BioImageDatabase of multidimensional biological imageshttp://www.bioimage.org/
BioMagResBankNMR spectroscopic data from proteins, peptides, and nucleic acidshttp://www.bmrb.wisc.edu/
BioModelsPublished mathematical models of biological interesthttp://www.ebi.ac.uk/biomodels/
BioSilicoIntegrated access to various metabolic databaseshttp://biosilico.kaist.ac.kr
BioThesaurusA collection of gene/protein names and associated sequenceshttp://pir.georgetown.edu/iprolink/biothesaurus
BIOZONDatabase of gene and protein familiy classificationhttp://biozon.org
BlocksAlignments of conserved regions in protein familieshttp://blocks.fhcrc.org
BodyMapHuman and mouse gene expression datahttp://bodymap.ims.u-tokyo.ac.jp/
BodyMap-XsCross-species comparison of vertebrate gene expressionhttp://bodymap.jp/
Brassica BASCDatabase for Brassica genomic researchhttp://hornbill.cspp.latrobe.edu.au/cgi-binpub/brassica/index.pl
BRENDAEnzyme names and biochemical propertieshttp://www.brenda-enzymes.info/
BRITEBiomolecular Relations in Information Transmission and Expressionhttp://www.genome.ad.jp/brite
BSORFBacillus subtilis Open Reading Frameshttp://bacillus.genome.ad.jp/
BTKbaseMutation registry for X-linked agammaglobulinemiahttp://bioinf.uta.fi/BTKbase/
BuchneraBaseGenomic database for the pea aphid symbiont Buchnera sp. APShttp://www.buchnera.org/
ButterflyBaseGenomics of butterflies (Lepidoptera)http://www.butterflybase.org
C. elegans ProjectGenome sequencing data at the Sanger Institutehttp://www.sanger.ac.uk/Projects/C_elegans
CADBConformational Angles DataBase of Proteinshttp://cluster.physics.iisc.ernet.in/cadb/
CADRECentral Aspergillus data repositoryhttp://www.cadre.man.ac.uk/
CAGECAGE tags for cap-analysis of gene expressionhttp://fantom31p.gsc.riken.jp/cage/mm5/
CampyDBCampylobacter DatabaseIncoroporated into xBase, no. 426
Cancer ChromosomesCytogenetic, clinical, and reference information on cancer-related aberrationshttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=cancerchromosomes
CancerGenesGene selection resource for cancer genome projectshttp://cbio.mskcc.org/cancergenes
Candida GenomeCandida albicans genome databasehttp://www.candidagenome.org/
CandidaDBCandida albicans genome databasehttp://genolist.pasteur.fr/CandidaDB
CanGEMGene copy number changes in cancerhttp://www.cangem.org/
CarbBankCCSD – Complex Carbohydrate Structure Databasehttp://bssv01.lancs.ac.uk/gig/pages/gag/carbbank.htm
CarpeDBComprehensive database on the genetics of epilepsyhttp://www.carpedb.ua.edu
CASRDBCalcium-sensing receptor database: CASR mutations causing hypercalcemia and/or hyperparathyroidismhttp://www.casrdb.mcgill.ca/
CATdbArabidopsis transcriptome datahttp://urgv.evry.inra.fr/CATdb
CATHProtein domain structures databasehttp://www.cathdb.info/
CATMAComplete Arabidopsis Transcriptome MicroArrayhttp://www.catma.org
CCDBCyberCell Databasehttp://redpoll.pharmacy.ualberta.ca/CCDB
CDDConserved domain database, includes protein domains from Pfam, SMART, COG and KOG databaseshttp://www.ncbi.nlm.nih.gov/Structure/cdd/cdd.shtml
CECombinatorial Extension method to compute and review 3D protein structure alignmentshttp://cl.sdsc.edu/ce.html
CEBSDatabase of toxicogenomics, microarray and proteomics data.http://cebs.niehs.nih.gov
CellCircuitsMolecular network models: from pairwise molecular interactions to whole pathwayshttp://www.cellcircuits.org
Cereal Small RNA DBSmall RNAs expressed in rice and maizehttp://sundarlab.ucdavis.edu/smrnas/
CFGPComparative Fungal Genomics Platformhttp://cfgp.snu.ac.kr
CGEDCancer Gene Expression Databasehttp://lifesciencedb.jp/cged/
ChEBIChemical entities of biological interesthttp://www.ebi.ac.uk/chebi/
ChemBankStructures and biological activities of small organic moleculeshttp://chembank.broad.harvard.edu/
ChemDB3D structures and properties of small moleculeshttp://cdb.ics.uci.edu
ChickVDSequence variation in the chicken genomehttp://chicken.genomics.org.cn
ChimerDBChimeric (fusion) sequences in human, rat and mousehttp://genome.ewha.ac.kr/ChimerDB/
Chloroplast genome DBChloroplast genome databasehttp://chloroplast.cbio.psu.edu/
ChromDBChromatin-associated proteins in a broad range of organismshttp://www.chromdb.org
CIDBChlamydia Interactive Database: Gene expression datahttp://www.it.deakin.edu.au/CIDB
Ciliate IES-MDS DbMacro- and micronuclear genes in spirotrichous ciliateshttp://oxytricha.princeton.edu/dimorphism/database.htm
CisRedHuman regulatory DNA sequence motifshttp://www.cisred.org/
CKAAPs DBConserved Key Amino Acid Positions DatabaseNo longer maintained
CleanExExpression reference database, linking heterogeneous expression data to facilitate cross-dataset comparisonshttp://www.cleanex.isb-sib.ch/
ClostriDBClostridium DatabaseIncoroporated into xBase, no. 426
CluSTrClusters of UniProt Knowledgebase and IPI proteinshttp://www.ebi.ac.uk/clustr/
CMGSDBComputational models for gene silencing in C. eleganshttps://bioinformatics.cs.vt.edu/cmgs/CMGSDB/
CnidBaseCnidarian evolution and gene expression databasehttp://cnidbase.bu.edu/
CoC CentralUniversally conserved residues in protein foldshttp://kulibin.mit.edu/coc/
COGClusters of orthologous groups of proteinshttp://www.ncbi.nlm.nih.gov/COG
COGEMEPhytopathogenic fungi and oomycete EST databasehttp://cogeme.ex.ac.uk
CoGenT++Complete genome tracking: Predicted peptides from fully sequenced genomeshttp://cgg.ebi.ac.uk/cgg/cpp_sitemap.html
coliBaseDatabase for E. coli, Salmonella and Shigellahttp://colibase.bham.ac.uk/
Colibrihttp://genolist.pasteur.fr/Colibri/ 
ColiSNPMapping non-synonymous SNPs on protein structureshttp://yayoi.kansai.jaea.go.jp/colisnp
Collagen Mutation DBHuman type I and type III collagen gene mutationshttp://www.le.ac.uk/genetics/collagen/
ColumbaAnnotation of protein structures from the PDBhttp://www.columba-db.de
COMeCo-Ordination of Metals etc.http://www.ebi.ac.uk/come/
ComparasiteDatabase for comparative study of parasite cDNAshttp://comparasite.hgc.jp/
Comparative GenometricsDNA walks, nucleotide skews and other biometric measures of prokaryotic genomeshttp://www.unil.ch/comparativegenometrics/
Consensus CDSCollaborative effort to identify a core set of human proteinshttp://www.ncbi.nlm.nih.gov/projects/CCDS/
CoPSComprehensive peptide signature databasehttp://cops.igib.res.in/copsv2/index.html
CORGComparative Regulatory Genomics: conserved non-coding blocks in vertebrate specieshttp://corg.molgen.mpg.de
CORGCOmparative Regulatory Genomics: conserved non-coding blockshttp://corg.molgen.mpg.de
CORUMExperimentally verified mammalian protein complexeshttp://mips.gsf.de/genre/proj/corum
CoryneRegNetCorynebacterial transcription factorshttp://www.coryneregnet.de
COSMICCatalogue Of Somatic Mutations In Cancer: Sequence data, samples and publicationshttp://www.sanger.ac.uk/perl/CGP/cosmic
CoVDBDatabase of coronavirus genes and genomeshttp://covdb.microbiology.hku.hk
COXPRESdbCoexpressed genes and networks in human and mousehttp://coxpresdb.hgc.jp/
cpnDBChaperonin databasehttp://cpndb.cbr.nrc.ca/
Cre Transgenic DBCre transgenic mouse lines with links to publicationshttp://www.mshri.on.ca/nagy/
CREMOFACDatabase of chromatin remodeling factorshttp://www.jncasr.ac.in/cremofac/
CR-ESTCropp ESTs: Barley, wheat, pea, and potato ESTshttp://pgrc.ipk-gatersleben.de/cr-est/
CryptoDBCryptosporidium databasehttp://cryptodb.org/
CSACatalytic Site Atlashttp://www.ebi.ac.uk/thornton-srv/databases/CSA/
CSDCambridge Structural Databasehttp://www.ccdc.cam.ac.uk/prods/csd/csd.html
CSDBaseCold Shock Domain databasehttp://www.chemie.uni-marburg.de/~csdbase/
CSSCarbohydrate Structure Suite: carbohydrate 3D structureshttp://www.dkfz.de/spec/css/
CTCF Binding Site DBExperimentally identified and predicted CTCF binding siteshttp://insulatordb.utmem.edu/
CTGADatabase for genetic disorders in Arabshttp://www.cags.org.ae
CutDBCommunity annotation resource for proteases, their substrates and cleavage siteshttp://cutdb.burnham.org/
CUTGCodon Usage Tabulated from GenBankhttp://www.kazusa.or.jp/codon/
CuticleDBStructural proteins of Arthropod cuticlehttp://bioinformatics.biol.uoa.gr/cuticleDB.
CyanoBaseCyanobacterial genomeshttp://www.kazusa.or.jp/cyano/
CyBaseProteins with cyclic backboneshttp://research1t.imb.uq.edu.au/cybase
CycleBaseGene expression profiles from cell-cycle microarray studieshttp://www.cyclebase.org
CyclonetDatabase on cell cycle regulationhttp://cyclonet.biouml.org/index.html
CYGDMIPS Comprehensive yeast genome databasehttp://mips.gsf.de/proj/yeast
CyMoBaseCytoskeletal and motor proteins databasehttp://www.motorprotein.de/cymobase
Cypriot national mutation databaseDisease mutations in the Cypriot populationhttp://www.goldenhelix.org/cypriot/
Cytokine Gene Poly-morphism DatabaseCytokine gene polymorphism literature databasehttp://www.nanea.dk/cytokinesnps/
Dali databaseFold classification based on structural alignment of proteinshttp://ekhidna.biocenter.helsinki.fi/dali/start
DARTDrug Adverse Reaction Targetshttp://xin.cz3.nus.edu.sg/group/drt/dart.asp
Database of Genomic VariantsHuman genomic variants: frequency, segmental duplications and genome assembly gapshttp://projects.tcag.ca/variation/
Database of Germline p53 MutationsMutations in human tumor and cell line p53 genehttp://www.lf2.cuni.cz/projects/germline_mut_p53.htm
DATFDatabase of Arabidopsis transcription factorshttp://datf.cbi.pku.edu.cn
DBAliDatabase of structure alignmentshttp://salilab.org/DBAli/
DBDTranscription factor prediction databasehttp://www.transcriptionfactor.org/
dbERGEIIDatabase of experimental results on gene expression: Genomic alignment, annotation and experimental datahttp://dberge.cse.psu.edu/menu.html
dbLEPDatabase of Liver proteome expression profileshttp://lep.hupo.org.cn/main.htm
dbMHCGenetic and clinical database of the human MHChttp://www.ncbi.nlm.nih.gov/mhc/
DB-PABPExperimentally characterized polyanion-binding proteinshttp://ppa.bcf.ku.edu/DB_PABP/
dbPTMInformation on post-translational modification of proteinshttp://dbptm.mbc.nctu.edu.tw/
dbQSNPQuantification of SNP allele frequencies databasehttp://qsnp.gen.kyushu-u.ac.jp/
dbRESDatabase of known RNA editing siteshttp://bioinfo.au.tsinghua.edu.cn/dbRES/
dbRIPHuman retrotransposon insertion polymorphismhttp://falcon.roswellpark.org:9090/
dbSNPDatabase of single nucleotide polymorphismshttp://www.ncbi.nlm.nih.gov/SNP/
DBSubLoc –Database of protein Subcellular Localizationhttp://www.bioinfo.tsinghua.edu.cn/dbsubloc.html
DBTBSBacillus subtilis promoters and transcription factorshttp://dbtbs.hgc.jp/
DBTBSBacillus subtilis promoters and transcription factorshttp://dbtbs.hgc.jp/
DBTGRDatabase of tunicate Ciona gene regulationhttp://dbtgr.hgc.jp/
DBTSSDatabase of transcriptional start siteshttp://dbtss.hgc.jp/
DCCPDatabase of Copper-Chelating Proteinshttp://sdbi.sdut.edu.cn/DCCP/en/index.php
DDBJ – DNA Data Bank of JapanAll known nucleotide and protein sequenceshttp://www.ddbj.nig.ac.jp
DDIBDatabase of domain interactions and bindinghttp://www.ddib.org/
Decoys-R-UsComputer-generated protein conformations based on sequence datahttp://dd.compbio.washington.edu/
DEDDatabase of evolutionary distancesNo longer maintained
Defensins KnowledgebaseAntimicrobial peptides of the defensin familyhttp://defensins.bii.a-star.edu.sg/
DEGDatabase of Essential Geneshttp://tubic.tju.edu.cn/deg
Déjà vuDuplicate citations in the scientific literaturehttp://spore.swmed.edu/dejavu/
DENIZBeta-thalassemia allele frequencies in world populationsNo longer maintained
DExH/D Family DBDEAD-box, DEAH-box and DExH-box proteinshttp://www.helicase.net/dexhd/dbhome.htm
DG-CSTDisease gene conserved sequence tagshttp://143.225.208.11/cst3/
D-HaploDBDefinitive haplotype databasehttp://orca.gen.kyushu-u.ac.jp
diArkDatabase of eukaryotic sequencing projectshttp://www.diark.org/diark/
Diatom EST DBESTs from diatom algae Thalassiosira and Phaeodactylumhttp://www.biologie.ens.fr/diatomics/EST/
DictyBaseUniversal resource for Dictyostelium discoideumhttp://dictybase.org/
DIMADomain interaction map: experimental data and predictions on protein domain interactionshttp://mips.gsf.de/genre/proj/dima2
DIPDatabase of interacting proteins: Experimentally-determined protein-protein interactionshttp://dip.doe-mbi.ucla.edu
DisProtDatabase of Protein Disorderhttp://divac.ist.temple.edu/disprot
DMAPSDatabase of multiple alignments for protein structureshttp://bioinformatics.albany.edu/~dmaps
DockgroundProtein-protein interfaces in co-crystallized protein structureshttp://dockground.bioinformatics.ku.edu/
DOMINEKnown and predicted protein domain interactions in PDB entrieshttp://domine.utdallas.edu
DOMINODomain peptide interactionshttp://mint.bio.uniroma2.it/domino/
DomInsDatabase of Domain Insertionshttp://www.domins.org/
DoOPDatabases of Orthologous Promoters: chordates and plantshttp://doop.abc.hu/
DPDBDrosophila polymorphism databasehttp://dpdb.uab.es/
DPInteractBinding sites for E. coli DNA-binding proteinshttp://arep.med.harvard.edu/dpinteract/
DPVwebDescriptions of plant viruseshttp://www.dpvweb.net
DRASTICDatabase resource for analysis of signal transduction in plant cellshttp://www.drastic.org.uk
DRCDatabase of ribosomal crosslinkshttp://www.mpimg-berlin-dahlem.mpg.de/~ag_ribo/ag_brimacombe/drc/
DroIDDrosophila gene and protein interaction datahttp://www.droidb.org/
Drosophila microarray centreCanadian Drosophila microarray centrehttp://www.flyarrays.com/
DroSpeGeDrosophila Species Genomeshttp://insects.eugenes.org/DroSpeGe/
DRTFDatabase of Rice Transcription Factorshttp://drtf.cbi.pku.edu.cn/
DrugBankCombined information on drugs and drug targetshttp://redpoll.pharmacy.ualberta.ca/drugbank/
DSDDatabase of dehydrogenase stereospecificitieshttp://www.jenner.ac.uk/DSD
DSDBASEDisulfide Databasehttp://www.ncbs.res.in/~faculty/mini/dsdbase/dsdbase.html
DSMMA Database of Simulated Molecular Motionshttp://projects.villa-bosch.de/dbase/dsmm/
DynaProt 2DProteome database of Lactococcus lactishttp://www.wzw.tum.de/proteomik/lactis/
EASEDExtended Alternatively Spliced EST Databasehttp://eased.bioinf.mdc-berlin.de/
EBI GenomesEBI’s collection of databases for the analysis of complete and unfinished viral, pro- and eukaryotic genomeshttp://www.ebi.ac.uk/genomes
eBLOCKSHighly conserved protein sequence blockshttp://fold.stanford.edu/eblocks/acsearch.html
ECgeneGenome annotation for alternative splicinghttp://genome.ewha.ac.kr/ECgene/
EchoBASEPost-genomic studies of Escherichia colihttp://www.ecoli-york.org/
EcoCycE. coli K12 genes, pathways, transporters, and gene regulationhttp://ecocyc.org/
EcoGeneSequence and literature data on E. coli genes and proteinshttp://ecogene.org/
ECRbaseDatabase of Evolutionary Conserved Regions, promoters, and transcription factor binding siteshttp://ecrbase.dcode.org/
EDASEST-derived alternative splicing databasehttp://www.ig-msk.ru:8005/EDAS/
Edinburgh Mouse AtlasDigital atlas of mouse embryonic developmenthttp://genex.hgu.mrc.ac.uk
eF-siteElectrostatic surface of Functional sitehttp://ef-site.protein.osaka-u.ac.jp/eF-site
eggNOGEvolutionary genealogy of genes: Non-supervised Orthologous Groupshttp://eggnog.embl.de
EGOEukaryotic Gene Orthologshttp://compbio.dfci.harvard.edu/tgi/ego/
EHCOEncyclopedia of hepatocellular carcinoma genes onlinehttp://ehco.iis.sinica.edu.tw
EICO DBExpression-based Imprint Candidate Organiserhttp://fantom2.gsc.riken.jp/EICODB/
EIDExon-intron databasehttp://www.meduohio.edu/bioinfo/eid/
EMAGEEdinburgh mouse atlas gene expression databasehttp://genex.hgu.mrc.ac.uk/Emage/database
EMBL Nucleotide Sequence DatabaseAll known nucleotide and protein sequenceshttp://www.ebi.ac.uk/embl.html
EMGlibEnhanced microbial genomes library: Completely sequenced genomes of unicellular organismshttp://pbil.univ-lyon1.fr/emglib/emglib.html
eMOTIFProtein sequence motif determination and searcheshttp://motif.stanford.edu/emotif
E-MSDEBI-Macromolecular Structure Databasehttp://www.ebi.ac.uk/msd
ENCODE ProjectEncyclopedia of DNA Elements, all functional elements in the human genomehttp://genome.ucsc.edu/ENCODE
Endogenous GPCR ListG protein-coupled receptors; expression in cell lineshttp://www.tumor-gene.org/GPCR/gpcr.html
EndoNetInformation on endocrine networkshttp://endonet.bioinf.med.uni-goettingen.de/
EnsemblAnnotated information on eukaryotic genomeshttp://www.ensembl.org/
Entrez GeneGene-centered information at NCBIhttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene
Entrez GenomesNCBI’s collection of databases for the analysis of complete and unfinished viral, pro- and eukaryotic genomeshttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Genome
ENZYMEEnzyme nomenclature and propertieshttp://www.expasy.org/enzyme/
Enzyme NomenclatureIUBMB Nomenclature Committee recommendationshttp://www.chem.qmul.ac.uk/iubmb/enzyme/
EPConDBGene expression in pancreatic development, beta cell function and diabeteshttp://www.cbil.upenn.edu/EPConDB
EPDEukaryotic promoter databasehttp://www.epd.isb-sib.ch/
EPGDEukaryotic Paralog Group Databasehttp://epgd.biosino.org:8080/EPGD/
EpitomeAntigenic epitopes in proteins and antibodies that bind themhttp://predictprotein.org/AifoEpi/
EpoDBGenes expressed during human Erythropoiesis databasehttp://www.cbil.upenn.edu/EpoDB/
ERGDBEstrogen Responsive Genes Databasehttp://sdmc.lit.org.sg/ergdb/cgi-bin/explore.pl
ERGO-LightIntegrated biochemical data on 10 bacterial genomes: Publicly-available portion of the ERGO databasehttp://www.ergo-light.com/
ERICEnteropathogen Resource Integration Centerhttp://www.ericbrc.org
EROP-MoscowDatabase of Endogenous Regulatory OligoPeptideshttp://erop.inbi.ras.ru
eSLDBeukaryotic proteins Subcellular Localization Databasehttp://gpcr.biocomp.unibo.it/esldb
Essential genes in E. coliA list of genes essential for viability of E. colihttp://www.genome.wisc.edu/resources/essential.htm
ESTHEREsterases and other alpha/beta hydrolase enzymeshttp://bioweb.ensam.inra.fr/ESTHER/general?what=index
euGenesGenomic Information for Eukaryotic Organismshttp://eugenes.org/
euHCVdbEuropean Hepatitis C Virus databasehttp://euhcvdb.ibcp.fr
European rRNA DBAll complete or nearly complete rRNA sequenceshttp://www.psb.ugent.be/rRNA/
EuroPhenomeLarge-scale phenotyping of knockout mouse lineshttp://www.europhenome.eu
EVERESTAutomatically generated protein domain familieshttp://www.everest.cs.huji.ac.il
EvolaHuman genes and their vertebrate orthologshttp://jbirc.jbic.or.jp/hinv/evola/
ExIntExon–intron structure of eukaryotic geneshttp://sege.ntu.edu.sg/wester/exint/
EXProtSequences of proteins with experimentally verified functionhttp://www.cmbi.kun.nl/EXProt/
ExtraTRAINExtragenic regions and transcriptional regulators in bacteria and archaeahttp://www.era7.com/ExtraTrain/
EyeSiteFamilies of proteins functioning in the eyehttp://eyesite.cryst.bbk.ac.uk/
EzCatDBEnzyme Catalytic Mechanism Databasehttp://mbs.cbrc.jp/EzCatDB/
FANTOMFunctional annotation of mouse full-length cDNA cloneshttp://fantom2.gsc.riken.go.jp
FCPFunctional coverage of the proteome by structureshttp://cgl.imim.es/fcp/
FESDFunctional Element SNPs Database: SNPs located within promoters, UTRs, etc., of human geneshttp://sysbio.kribb.re.kr/FESD/
FESDFunctional Element SNPs Database: SNPs located within promoters, UTRs, etc., of human geneshttp://sysbio.kribb.re.kr/FESD/  
FGDBMIPS Fusarium graminearum genome databasehttp://mips.gsf.de/genre/proj/fusarium/
FIMMFunctional molecular immunology datahttp://research.i2r.a-star.edu.sg/fimm
FINDBaseFrequencies of INherited Disordershttp://www.findbase.org
FireDBFunctionally important residues in protein structureshttp://firedb.bioinfo.cnio.es/
FLAGdb++Integrative database about plant genomeshttp://urgv.evry.inra.fr/projects/FLAGdb++/HTML/index.shtml
FLIGHTDrosophila phenotypes, gene expression and protein interactionshttp://flight.licr.org/
FLJ-DBAnnotated full-length human cDNAs (formerly HUNT database)http://fldb.hgc.jp/cgi-bin/cDNA3/public/publication/index.cgi
FlyBaseDrosophila sequences and genomic informationhttp://flybase.org/
FlyBrainDatabase of the Drosophila nervous systemhttp://flybrain.neurobio.arizona.edu/
FlyMineIntegration of insect genomic and proteomic datahttp://www.flymine.org
FlyRNAi DRSCGenome-wide RNAi analysis data in Drosophilahttp://flyRNAi.org/cgi-bin/RNAi_screens.pl
FLYSNPSingle nucleotide polymorphism data for Drosophila melanogasterhttp://flysnp.imp.univie.ac.at
FlyTFDrosophila Transcription Factorshttp://www.mrc-lmb.cam.ac.uk/genomes/FlyTF/
FlyTrapDrosophila mutants created using protein trap strategyhttp://flytrap.med.yale.edu/
FlyViewDrosophila development and geneticshttp://flyview.uni-muenster.de/
ForestTreeDBAnnotated ESTs from diverse organs of conifer and poplar treeshttp://foresttree.org/ftdb
FREPFunctional Repeats in mouse cDNAshttp://facts.gsc.riken.go.jp/FREP/
fRNAdbFunctional RNA Database: noncoding transcripts that affect gene expressionhttp://www.ncrna.org/
FSNFlexible structural neighborhood, structural neighbors of proteins identified by FATCAT toolhttp://fatcat.ljcrf.edu/fatcat-cgi/cgi/struct_neibor/fatcatStructNeibor.pl
F-SNPFunctional effects of various human SNPshttp://compbio.cs.queensu.ca/F-SNP/
FSSPSuperseded by the Dali database, no. 442 
FUGOIDFunctional genomics of organelle introns databasehttp://web.austin.utexas.edu/fugoid/introndata/main.htm
Full-MalariaFull-length cDNA library from erythrocytic-stage Plasmodiumhttp://fullmal.ims.u-tokyo.ac.jp
Fungal Genome Size DatabaseGenome sizes of various fungihttp://www.zbi.ee/fungal-genomesize/
FUNPEPLow-complexity peptides capable of forming amyloid plaquehttp://www.cmbi.kun.nl/swift/FUNPEP/gergo/
FunShiftFunctional divergence between the subfamilies of a protein domain familyhttp://FunShift.cgb.ki.se
FunSimMatGene Ontology-based functional similarity values for proteins and protein familieshttp://gotax.bioinf.mpi-inf.mpg.de/funsimmat/
FusionDBDatabase of bacterial and archaeal gene fusion eventshttp://www.igs.cnrs-mrs.fr/FusionDB/
GABI-KatFlanking sequence tags for T-DNA insertions in Arabidopsishttp://www.GABI-Kat.de
GabiPDCentral database of the German Plant Genome Projecthttp://gabi.rzpd.de
GadFlyGenome annotation database of Drosophilahttp://www.fruitfly.org
GALAGenomic alignment, annotation and experimental resultshttp://gala.cse.psu.edu/
Gallus GbrowseGenomic information on chicken and other avian specieshttp://birdbase.net/
GDBHuman genes and genomic mapshttp://www.gdb.org
GEISHAGallus expression in situ hybridization analysishttp://geisha.arizona.edu
GELBANK2D gel electrophoresis patterns of proteins from complete microbial genomeshttp://gelbank.anl.gov
GenAtlasHuman genes, markers and phenotypeshttp://www.genatlas.org/
GenBank®All known nucleotide and protein sequenceshttp://www.ncbi.nlm.nih.gov/Entrez
GenDiSGenomic distribution of protein structural superfamilieshttp://caps.ncbs.res.in/gendis/home.html
Gene Aging NexusAging-related gene expression datahttp://gan.usc.edu
Gene Expression in Tooth DatabaseGene expression in dental tissuehttp://bite-it.helsinki.fi/
Gene Resource LocatorAlignment of ESTs with finished human sequenceNo longer maintained
Gene3DPrecalculated structural assignments for whole genomeshttp://cathwww.biochem.ucl.ac.uk:8080/Gene3D/
GeneAnnotRevised annotation of Affymetrix human gene probe setshttp://genecards.weizmann.ac.il/geneannot/
GeneCardsIntegrated database of human genes, maps, proteins and diseaseshttp://bioinfo.weizmann.ac.il/genecards/
GeneDBCurated database for various Sanger-sequenced genomeshttp://www.genedb.org/
GeneFarmExpert annotation of Arabidopsis gene and protein familieshttp://urgi.versailles.inra.fr/Genefarm/
GeneLocGene location databasehttp://genecards.weizmann.ac.il/geneloc/
GeneNestGene indices of human, mouse, zebrafish, etc.http://genenest.molgen.mpg.de/
GeneNetDatabase on gene network componentshttp://wwwmgs.bionet.nsc.ru/mgs/gnw/genenet/
GeneNoteHuman genes expression profiles in healthy tissueshttp://genecards.weizmann.ac.il/genenote/
GenePaintGene expression patterns in the mousehttp://www.genepaint.org/Frameset.html
GeneSpeedProtein domains in the expressed human, mouse, fly and worm geneshttp://genespeed.ccf.org
Genetic CodesGenetic codes in various organisms and organelleshttp://www.ncbi.nlm.nih.gov/Taxonomy/Utils/wprintgc.cgi?mode=c
Genetics Home ReferenceA general guide on human hereditary diseaseshttp://ghr.nlm.nih.gov/
GeneTideA transcriptome-focused member of the GeneCards suitehttp://genecards.weizmann.ac.il/genetide/
GeneTrapExpression patterns in an embryonic stem library of gene trap insertionshttp://www.cmhd.ca/genetrap/
GeneTreesPre-compiled alignments and gene phylogenies for a variety of taxonomic groupshttp://genetrees.vbi.vt.edu
GeniSysEnhancer- and promoter-inserted mutants of Drosophilahttp://genisys.kaist.ac.kr:8080
GenMapDBMapped human BAC cloneshttp://genomics.med.upenn.edu/genmapdb
GenoBaseFunctional genomic aAnalysis of E. coli in Japanhttp://ecoli.aist-nara.ac.jp/
GénolevuresA comparison of S. cerevisiae and 14 other yeast specieshttp://cbi.labri.fr/Genolevures
GenoListAn integrated environment for comparative analysis of microbial genomeshttp://genolist.pasteur.fr/
Genome AtlasDNA structural properties of sequenced genomeshttp://www.cbs.dtu.dk/services/GenomeAtlas/
Genome Database for RosaceaeGenetics and genomics data on apple, cherry, peach, pear, raspberry, rose and strawberryhttp://www.bioinfo.wsu.edu/gdr/
Genome Information BrokerDDBJ’s collection of genome databaseshttp://gib.genes.nig.ac.jp
Genome Project DBNCBI’s database of large-scale genome sequencing projectshttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?CMD=search&DB=genomeprj
Genome ReviewsIntegrated view of complete genomeshttp://www.ebi.ac.uk/GenomeReviews/
GenomeRNAiCell-based RNAi phenotypes databasehttp://www.dkfz.de/signaling/ernai/ernai.html
GenomeTraFaCConserved regulatory elements of human and mouse geneshttp://genometrafac.cchmc.org
Genomic Threading DBStructural annotations of complete genomeshttp://bioinf.cs.ucl.ac.uk/GTD
GénoPlante-InfoPlant genomic data from the Génoplante consortiumhttp://www.genoplante.com/
GenProtECE. coli K12 genome and proteome databasehttp://genprotec.mbl.edu
GENSATGene Expression Nervous System Atlas: a map of gene expression in the central nervous system of the mousehttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gensat
GEOGene Expression Omnibus: Public gene expression repositoryhttp://www.ncbi.nlm.nih.gov/geo/
GermOnlineGene expression in mitotic and meiotic cell cyclehttp://www.germonline.org/
GISSDGroup I Intron Sequence and Structure Databasehttp://www.rna.whu.edu.cn/gissd
GLIDAG-protein coupled receptors ligand databasehttp://pharminfo.pharm.kyoto-u.ac.jp/services/glida/
GlycanCarbohydrate database, part of the KEGG systemhttp://glycan.genome.ad.jp/
Glycoconjugate Data BankAnnotated structures of glycan moleculeshttp://daisy2.nagahama-i-bio.ac.jp/structures/
GlycoMaps DBConformational maps of disaccharideshttp://www.glycosciences.de/modeling/glycomapsdb/
GlycoSuiteDBN- and O-linked glycan structures and biological sourceshttp://www.glycosuite.com
GOGene ontology consortium databasehttp://www.geneontology.org/
GOAGene Ontology Annotationhttp://www.ebi.ac.uk/GOA
GOBASEOrganelle genome databasehttp://megasun.bch.umontreal.ca/gobase/gobase.html
GOLDGenomes online database: a listing of completed and ongoing genome projectshttp://www.genomesonline.org/
GOLD.dbGenomics Of Lipid-associated Disordershttp://gold.tugraz.at
GOPaDGene Ontology Partition Databasehttp://bcl.med.harvard.edu/proj/gopart
GPCRDBG protein-coupled receptors databasehttp://www.gpcr.org/7tm/
gpDBG-protein database: G-proteins and their interaction with GPCRshttp://bioinformatics.biol.uoa.gr/gpDB
GPX-MacrophageGene expression in macrophageshttp://ebola.gti.ed.ac.uk:8090/GPX/htdocs/index.html
GrainGenesGenes and phenotypes of wheat, barley, rye, triticale, oatshttp://wheat.pw.usda.gov
GrameneA resource for comparative grass genomicshttp://www.gramene.org
GreengenesMultiple sequence alignment of prokaryotic 16S rDNAhttp://greengenes.llnl.gov/16S/
GreenPhylDBComparative genomics of rice and Arabidopsis thalianahttp://greenphyl.cirad.fr
GreglistG-quadruplex motifs and potentially G-quadruplex regulated geneshttp://tubic.tju.edu.cn/greglist/
GRSDBG-rich sequences databasehttp://bioinformatics.ramapo.edu/GRSDB2/
GTOPProtein fold predictions from genome sequenceshttp://spock.genes.nig.ac.jp/~genome/gtop.html
G-tRNA-dbGenomic tRNA Databasehttp://lowelab.ucsc.edu/GtRNAdb/
GXDMouse Gene Expression Databasehttp://www.informatics.jax.org/menus/expression_menu.shtml
GyDBGypsy database of mobile genetic elementshttp://gydb.uv.es/gydb/intro.htm
HaemBFactor IX gene mutations, insertions and deletionshttp://www.kcl.ac.uk/ip/petergreen/haemBdatabase.html
HAGRHuman ageing genomic resources: Genes related to ageing in humans and model organismshttp://genomics.senescence.info/
HapMap ProjectA haplotype map of the human genome with patterns of DNA sequence variationhttp://snp.cshl.org
HaptendbCurated database of hapten moleculeshttp://www.imtech.res.in/raghava/haptendb/
HbVarHuman hemoglobin variants and thalassemiashttp://globin.cse.psu.edu/globin/hbvar
HCADHuman chromosome aberration database: Chromosomal breakpoints and affected geneshttp://www.pdg.cnb.uam.es/UniPub/HCAD/
HCV DatabaseHepatitis C Virus (HCV) Sequence Databasehttp://hcv.lanl.gov/
HCVdbHepatitis C Virus Databasehttp://hepatitis.ibcp.fr/
H-DBASHuman database of alternative splicinghttp://jbirc.jbic.or.jp/h-dbas/
HDBaseA website for Huntington’s disease researchhttp://hdbase.org/
Hedgehog signallingResources and annotations of the Hedgehog signaling pathwayhttp://hedgehog.sfsu.edu/
HEG-DBPredicted highly expressed genes in prokaryotic genomeshttp://genomes.urv.cat/HEG-DB
HemBaseGenes expressed in differentiating human erythroid cellshttp://hembase.niddk.nih.gov/
Heme Protein DBHeme protein structure, heme type, axial ligands, and heme protein reduction potential (Em) valueshttp://heme.chem.columbia.edu/heme.php
HemoPDBHematopoietic Promoter Databasehttp://bioinformatics.med.ohio-state.edu/HemoPDB
HepSeqEpidemiological, clinical, and sequence data on the Hepatitis B virushttp://www.hpa-bioinfodatabases.org.uk/ hepatitis_open/main.php
HERVdHuman Endogenous Retrovirus databasehttp://herv.img.cas.cz
Het-PDB NaviHetero-atoms in protein structureshttp://daisy.bio.nagoya-u.ac.jp/golab/hetpdbnavi.html
HGMDHuman gene mutation databaseRequires user registration
HGNC DatabaseThe HUGO Gene Nomenclature Database (formerly Genew)http://www.genenames.org/
HGT-DBHorizontal Gene Transfer-DataBasehttp://www.fut.es/~debb/HGT/
HGVbaseHuman genome variation database: Curated human polymorphismshttp://hgvbase.cgb.ki.se
HGVS DatabasesA compilation of human mutation databaseshttp://www.hgvs.org/
HIC-UpHetero-compound Information Centre – Uppsalahttp://xray.bmc.uu.se/hicup/
H-InvDBFull-length human cDNA cloneshttp://www.h-invitational.jp/
Histone DatabaseHistone fold sequences and structureshttp://research.nhgri.nih.gov/histones/
HitsDatabase of protein domains and motifshttp://hits.isb-sib.ch
HIV Drug Resistance DatabaseHIV mutations that confer resistance to anti-HIV drugshttp://resdb.lanl.gov/Resist_DB/default.htm
HIV Molecular Immunology DatabaseHIV epitopeshttp://hiv-web.lanl.gov/immunology/
HIV Positive Selection Mutation DatabasePositively selected mutations in HIV-1 protease and reverse transcriptasehttp://bioinfo.mbi.ucla.edu/HIV
HIV RT and Protease Sequence DatabaseHIV reverse transcriptase and protease sequenceshttp://hivdb.stanford.edu
HIV Sequence DBHIV RNA sequenceshttp://hiv-web.lanl.gov/
HMDBThe Human Metabolome Database: Curated human metabolite and metabolism datahttp://www.hmdb.ca
HMPDHuman mitochondrial protein databasehttp://bioinfo.nist.gov/hmpd/
HmtDBHuman mitochondrial databasehttp://www.hmtdb.uniba.it/
HOINVGENHomologous invertebrate geneshttp://pbil.univ-lyon1.fr/databases/hoinvgen/HOINVGEN.html
HollywoodExon annotation databasehttp://hollywood.mit.edu
Homeobox PageHomeobox proteins, classification, and evolutionhttp://www.biosci.ki.se/groups/tbu/homeo.html
Homeodomain ResourceHomeodomain sequences, structures, and related genetic and genomic informationhttp://research.nhgri.nih.gov/homeodomain/
HomoloGeneAutomatically detected homologous genes in complete eukaryotic genomeshttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=homologene
HomophilaDrosophila homologs of human disease geneshttp://superfly.ucsd.edu/homophila/
HomophilaDrosophila homologs of human disease geneshttp://superfly.ucsd.edu/homophila/
HOMSTRADHomologous structure alignment database: curated structure-based alignments for protein familieshttp://www-cryst.bioc.cam.ac.uk/homstrad
HoppsigenHuman and mouse homologous processed pseudogeneshttp://pbil.univ-lyon1.fr/databases/hoppsigen.html
HORDEHuman Olfactory Receptor Data Exploratoriumhttp://bioinfo.weizmann.ac.il/HORDE/
HotSprintHot spots (functionally and structurally important residues) in protein interfaceshttp://prism.ccbb.ku.edu.tr/hotsprint/
HOWDYHuman organized whole genome databasehttp://www-alis.tokyo.jst.go.jp/HOWDY/
HOX-PROHomeobox genes databasehttp://www.iephb.nw.ru/labs/lab38/spirov/hox_pro/hox-pro00.html
hp-DPIDatabase of protein interactions in Helicobacter pylorihttp://dpi.nhri.org.tw/hp/
HPIDHuman protein interaction databasehttp://www.hpid.org
HPMRHuman plasma membrane receptome: sequences, literature, and expression datahttp://receptome.stanford.edu/
HPRDHuman protein reference database: domain architecture, post-translational modifications, and disease associationhttp://www.hprd.org
HPTAAHuman potential tumor-associated antigenshttp://www.bioinfo.org.cn/hptaa/
HS3DHomo Sapiens Splice Sites Datasethttp://www.sci.unisannio.it/docenti/rampone/
HSSPHomology-derived structures of proteinshttp://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-page+LibInfo+-lib+HSSP
HTPSELEXTranscription factor binding site sequences obtained using high-throughput SELEX methodhttp://www.isrec.isb-sib.ch/htpselex/
HUGEHuman unidentified gene-encoded large (>50 kDa) protein and cDNA sequenceshttp://www.kazusa.or.jp/huge/
HuGEIndexHuman Gene Expression Index: Expression levels in normal tissueshttp://zlab.bu.edu/HugeSearch
Human BAC Ends DBNon-redundant human BAC end sequenceshttp://www.tigr.org/tdb/humgen/bac_end_search/bac_end_intro.html
Human Genome Seg-mental Duplication DBSegmental duplications in the human genomehttp://projects.tcag.ca/humandup
Human MtDBHuman mitochondrial genome databasehttp://www.genpat.uu.se/mtDB
Human p53, human hprt, rodent lacI and rodent lacZ databasesMutations at the human p53 and hprt genes; rodent transgenic lacI and lacZ mutationshttp://www.ibiblio.org/dnam/mainpage.html
Human PAML BrowserPositive selection in human genes detected through genome comparisonhttp://mendel.gene.cwru.edu/adamslab/pbrowser.py
Human PAX2 Allelic Variant DatabaseMutations in human PAX2 genehttp://pax2.hgu.mrc.ac.uk/
Human PAX6 Allelic Variant DatabaseMutations in human PAX6 genehttp://pax6.hgu.mrc.ac.uk/
HumHotHuman meiotic recombination hot spotshttp://www.jncasr.ac.in/humhot/
HuSiDaHuman siRNA databasehttp://itb.biologie.hu-berlin.de/~nebulus/sirna/index.htm
HvrBase++Primate mitochondrial DNA control region sequenceshttp://www.hvrbase.org
HyPaLibHybrid pattern library: structural elements in classes of RNANot actively maintained
I2DInterologous Interaction Database: Predicted protein-protein interactions in humanshttp://ophid.utoronto.ca/i2d
IARC TP53 DatabaseHuman TP53 somatic and germline mutationshttp://www-p53.iarc.fr/index.html
ICBgyrB database for identification of bacteriahttp://seasquirt.mbio.co.jp/icb/
IDBDInfectious Disease Biomarker Databasehttp://biomarker.korea.ac.kr
IL2RgbaseX-linked severe combined immunodeficiency mutation databasehttp://research.nhgri.nih.gov/scid/
IMB Jena Image LibraryVisualization and analysis of 3D biopolymer structureshttp://www.imb-jena.de/IMAGE.html
IMGComparative analysis of microbial genomes sequenced at the DOE Joint Genome Institutehttp://img.jgi.doe.gov/
IMG/MA data management and analysis system for metagenomeshttp://img.jgi.doe.gov/m
IMGTInternational immunogenetics information system: Immunoglobulins, T cell receptors, MHC, and RPIhttp://imgt.cines.fr
IMGT/3Dstructure-DB3D structures of Immunoglobulins, T cell receptors, and MHC proteinshttp://imgt3d.igh.cnrs.fr/
IMGT/GENE-DBVertebrate immunoglobulin and T cell receptor geneshttp://imgt.cines.fr/cgi-bin/GENElect.jv
IMGT/HLAPolymorphism of human MHC and related geneshttp://www.ebi.ac.uk/imgt/hla/
IMGT/LIGM-DBImmunoglobulin, T cell receptor and MHC nucleotide sequences from human and other vertebrateshttp://imgt.cines.fr/cgi-bin/IMGTlect.jv
IMGT/PRIMER-DBImmunogenetics oligonucleotide primer databasehttp://imgt3d.igh.cnrs.fr/PrimerDB/Query_PrDB.pl
Immune epitope DBAntibody and T cell epitopes for primates, rodents, and other animalshttp://www.immuneepitope.org/
IMOTdbSpatially interacting motifs in proteinshttp://caps.ncbs.res.in/imotdb/
Imprinted Gene CatalogueImprinted genes and parent-of-origin effects in animalshttp://igc.otago.ac.nz/home.html
InBaseInteins (protein splicing elements) database: properties, sequences, bibliographyhttp://www.neb.com/neb/inteins.html
INEIntegrated rice genome explorerhttp://rgp.dna.affrc.go.jp/giot/INE.html
INFEVERSHereditary inflammatory disorder and familial mediterranean fever mutation datahttp://fmf.igh.cnrs.fr/infevers
Influenza Virus ResourceProtein and nucleotide sequences of the influenza virushttp://www.ncbi.nlm.nih.gov/genomes/FLU/FLU.html
InparanoidDatabase of eukaryotic orthologshttp://inparanoid.cgb.ki.se/
InSatDbSequences and properties of insect microsatelliteshttp://www.cdfd.org.in/insatdb
IntActProtein-protein interaction datahttp://www.ebi.ac.uk/intact/
Integr8Functional classification of proteins in whole genomeshttp://www.ebi.ac.uk/integr8/
IntEnzIntegrated enzyme database and enzyme nomenclaturehttp://www.ebi.ac.uk/intenz
InterActive FlyDrosophila genes and their roles in developmenthttp://www.sdbonline.org/fly/aimain/1aahome.htm
Inter-Chain Beta-SheetsProtein interactions mediated by interchain beta-sheet formationhttp://www.igb.uci.edu/servers/icbs/
InterDomPutative protein domain interactionshttp://interdom.i2r.a-star.edu.sg/
InterDomPutative protein domain interactionshttp://interdom.i2r.a-star.edu.sg/
Interferon Stimulated Gene DatabaseGenes induced by treatment with interferonshttp://www.lerner.ccf.org/labs/williams/xchip-html.cgi
InterFilHuman Intermediate Filament databasehttp://www.interfil.org
International Gene Trap Consortium DBPublicly available gene trap cell lines in mousehttp://www.genetrap.org/
InterProIntegrated resource of protein families, domains and functional siteshttp://www.ebi.ac.uk/interpro
Interrupted coding sequences DBInterrupted coding sequences: frameshifts, stop codons, sequencing errors in microbial genomeshttp://www-bio3d-igbmc.u-strasbg.fr/ICDS/
IntroneratorAlternative splicing in C. elegans and C. briggsaehttp://hgwdev-hiram.cse.ucsc.edu/IntronWS120/
IntroneratorIntrons and splicing in C. elegans and C. briggsaehttp://www.cse.ucsc.edu/~kent/intronerator/
IPDImmuno Polymorphism Databasehttp://www.ebi.ac.uk/ipd/
IPD-ESTDABImmunologically characterised melanoma cell lineshttp://www.ebi.ac.uk/ipd/
IPD-HPAHuman platelet antigenshttp://www.ebi.ac.uk/ipd/
IPD-KIRKiller-cell Immunoglobulin-like Receptorshttp://www.ebi.ac.uk/ipd/
IPD-MHCSequences of the major histocompatibility complexhttp://www.ebi.ac.uk/ipd/mhc
IPIInternational Protein Indexhttp://www.ebi.ac.uk/IPI
iProClassIntegrated protein classification databasehttp://pir.georgetown.edu/iproclass/
iProLINKAnnotated literature sources for protein features and nameshttp://pir.georgetown.edu/iprolink
IRESdb –the Internal Ribosome Entry Site databasehttp://ifr31w3.toulouse.inserm.fr/IRESdatabase/
IRESiteExperimentally studied internal ribosome entry siteshttp://www.iresite.org
IRIS –International Rice Information Systemhttp://www.iris.irri.org
ISfinderInsertion sequences from bacteria and archaeahttp://www-is.biotoul.fr
IslanderPathogenicity islands and prophages in bacterial genomeshttp://www.indiana.edu/~islander
ITS2Predicted structures of internal transcribed spacer 2 (ITS2) moleculeshttp://its2.bioapps.biozentrum.uni-wuerzburg.de/ITS2_db.html
ITTACAIntegrated tumor transcriptome array and clinical data analysishttp://bioinfo.curie.fr/ittaca
IUBMB Nomenclature databaseNomenclature of enzymes, membrane transporters, electron transport proteins and other proteinshttp://www.chem.qmul.ac.uk/iubmb/
IUPAC Nomenclature databaseNomenclature of biochemical and organic compounds approved by the IUBMB-IUPAC Joint Commissionhttp://www.chem.qmul.ac.uk/iupac/
IUPHAR-RDInternational Union of Pharmacology recommendations on receptor nomenclature and drug classificationhttp://www.iuphar-db.org/iuphar-rd/
IVDBInfluenza Virus Database : Annotated sequences and geographic distribution of the influenza virushttp://influenza.genomics.org.cn
IXDBPhysical maps of human chromosome Xhttp://ixdb.mpimg-berlin-dahlem.mpg.de
JASPARPSSMs for transcription factor DNA-binding siteshttp://jaspar.cgb.ki.se
JenPepQuantitative binding data for peptides and proteins of immunological interestSuperseded by AntiJen, no. 799
JSNPJapanese SNP databasehttp://snp.ims.u-tokyo.ac.jp/
KaryotypeDBKaryotype and chromosome data for animal and plant specieshttp://www.nenno.it/karyotypedb/
KBERGKnowledgeBase for Estrogen Responsive Geneshttp://research.i2r.a-star.edu.sg/kberg
KDBIKinetic data of bio-molecular interactionshttp://bioinf.xmu.edu.cn/databases/kdbi/kdbi.php
KEGGKyoto Encyclopedia of Genes and Genomes: databases on genes, proteins, and metabolic pathwayshttp://www.genome.ad.jp/kegg
KEGG PathwayMetabolic and regulatory pathways in complete genomeshttp://www.genome.jp/kegg/pathway.html
Kidney Development DatabaseKidney development and gene expressionhttp://golgi.ana.ed.ac.uk/kidhome.html
KinGKinases in Genomes: Ser/Thr/Tyr kinases encoded in the completely sequenced genomeshttp://hodgkin.mbu.iisc.ernet.in/~king
KinMutBaseDisease-causing protein kinase mutationshttp://www.uta.fi/imt/bioinfo/KinMutBase/
KlothoCollection and categorization of biological compoundshttp://www.biocheminfo.org/klotho/
Knottin databaseDatabase of knottins, small proteins with an unusual “disulfide through disulfide” knothttp://knottin.cbs.cnrs.fr/
KOGEukaryotic Orthologous Groups of proteinshttp://www.ncbi.nlm.nih.gov/COG/
L1BaseFunctional annotation and prediction of LINE-1 elementshttp://line1.molgen.mpg.de
LEGERPost-genome research of Listeriahttp://leger2.gbf.de/cgi-bin/expLeger.pl
Legume Information SystemLegume information server (formerly Medicago genome initiative): ESTs, gene expression and proteomic datahttp://www.comparative-legumes.org/
LeptoListLeptospira interrogans genomehttp://www.bioinfo.hku.hk/LeptoList/.
LGICdbLigand-gated ion channel subunit sequences databasehttp://www.pasteur.fr/recherche/banques/LGIC/LGIC.html
LIFEdbLocalization, interaction and functions of human proteinshttp://www.dkfz.de/LIFEdb
LIGANDChemical compounds and reactions in biological pathwayshttp://www.genome.ad.jp/ligand/
LigAsiteBiologically relevant binding sites in proteins with known structureshttp://www.scmbb.ulb.ac.be/Users/benoit/LigASite
Lipase Engineering DBSequence, structure and function of lipases and esteraseshttp://www.led.uni-stuttgart.de/
Lipid MAPSLipid metabolites and pathways strategyhttp://www.lipidmaps.org
LOCATESubcellular localization of mouse proteinshttp://locate.imb.uq.edu.au/
LOLAList of lists annotated: a comparison of gene sets identified in different microarray experimentshttp://www.lola.gwu.edu/
Lowe Syndrome Mutation DatabaseMutations causing Lowe oculocerebrorenal syndromehttp://research.nhgri.nih.gov/lowe/
LOX-DBMammalian, invertebrate, plant and fungal lipoxygenaseshttp://www.dkfz-heidelberg.de/spec/lox-db/
LPFCLibrary of protein family core structureshttp://helix-web.stanford.edu/LPFC/
LumbriBASEESTs of the earthworm Lumbricus rubellushttp://www.earthworms.org
M3DMany Microbe Microarrays Databasehttp://m3d.bu.edu/
MACiEMechanism, annotation and classification in enzymes: enzyme reaction mechanismshttp://www.ebi.ac.uk/thornton-srv/databases/MACiE/
MAGESTAscidian (Halocynthia roretzi) gene expression patternshttp://magest.hgc.jp/
Magnaporthe grisea DBMagnaporthe grisea Databasehttp://www.broad.mit.edu/annotation/genome/magnaporthe_grisea/Home.html
MaizeGDBMaize genetics and genomics databasehttp://www.maizegdb.org
MALISAMManual alignments for structurally analogous motifs in proteinshttp://prodata.swmed.edu/malisam
MAMEPMolecular Anatomy of the Mouse Embryo Projecthttp://mamep.molgen.mpg.de/
Mammalian Gene CollectionFull-length open reading frame clones for human, mouse, and rat geneshttp://mgc.nci.nih.gov/
MamMiBaseMammalian mitochondrial genome databasehttp://xavante.fmrp.usp.br/mammibase/
MamPolMammalia Polymorphism Databasehttp://mampol.uab.es
Map ViewerDisplay of genomic information by chromosomal positionhttp://www.ncbi.nlm.nih.gov/mapview/
MAPPERPutative transcription factor binding sites in various genomeshttp://bio.chip.org/mapper
MAPUMax-Planck Unified proteome databasehttp://www.mapuproteome.com
MAtDBMIPS Arabidopsis thaliana databasehttp://mips.gsf.de/proj/thal/db
MBGDMicrobial genome database for comparative analysishttp://mbgd.genome.ad.jp/
MedicCycBiochemical pathways in Medicago truncatulahttp://www.noble.org/mediccyc/
MegaMotifbaseStructural motifs in protein families and superfamilieshttp://caps.ncbs.res.in/MegaMotifbase/index.html
MeGXMarine ecological genomix: genomics and metagenomics of marine bacteriahttp://www.Megx.net
MEPDGene expression in medaka (freshwater fish Oryzias latipes)http://www.embl.de/mepd/
MeRNAMetal ion binding sites in RNAhttp://merna.lbl.gov
MEROPSDatabase of proteolytic enzymes (peptidases)http://merops.sanger.ac.uk/
MetaCropBiochemical pathways and enzymes in crop plantshttp://metacrop.ipk-gatersleben.de
MetaCycMetabolic pathways and enzymes from various organismshttp://metacyc.org/
MetaCycMetabolic pathways and enzymes from various organismshttp://metacyc.org
MetaGrowthGrowth requirements of bacterial pathogenshttp://igs-server.cnrs-mrs.fr/axenic/
Metalloprotein Site DBMetal-binding sites in metalloproteinshttp://metallo.scripps.edu/
MetaRouterCompounds and pathways related to bioremediationhttp://pdg.cnb.uam.es/MetaRouter
MethDBDNA methylation data, patterns and profileshttp://www.methdb.de
MethyCancerLinks between DNA methylation levels and cancerhttp://methycancer.genomics.org.cn
MFunGDMIPS mouse functional genomics databasehttp://mips.gsf.de/genre/proj/mfungd
MHCBNDatabase of MHC binding and non-binding peptideshttp://www.imtech.res.in/raghava/mhcbn/
MHCPEPMHC-binding peptideshttp://bio.dfci.harvard.edu/DFRMLI/
MICdbProkaryotic microsatelliteshttp://210.212.212.7/MIC/index.html
MiCroKitMidbody, Centrosome and Kinetochore proteinshttp://bioinformatics.lcd-ustc.org/microkit/
microRNA.orgmicroRNA target predictions and expression profileshttp://www.microrna.org
MiMIMichigan Molecular Interactions: Protein-protein interactionshttp://mimi.ncibi.org/MiMI/home.jsp
MINTMolecular INTeractionhttp://mint.bio.uniroma2.it/mint/
MIPS resourcesMunich Information Center for Protein Sequences databaseshttp://mips.gsf.de/
MIPSPlantsDBMIPS Plants Databaseshttp://mips.gsf.de/proj/plant/jsf/
miRBaseMicroRNA sequences, names, and predicted targets in animalshttp://microrna.sanger.ac.uk/sequences/
miRGatormicroRNA target prediction, functional analysis, and gene expression datahttp://genome.ewha.ac.kr/miRGator/miRGator.html
miRGenAnimal microRNAs located in introns, exons, UTRs, pseudogenes and CpG islandshttp://www.diana.pcbi.upenn.edu/miRGen
miRNAMapmicroRNA precursors and their mapping to targets in vertebrate genomeshttp://mirnamap.mbc.nctu.edu.tw
MiSTMicrobial Signal Transduction databasehttp://genomics.ornl.gov/mist/
MitochondriomeMetazoan mitochondrial geneshttp://www.ba.itb.cnr.it/mitochondriome/
MitoDatMitochondrial proteins (predominantly human)http://www-lecb.ncifcrf.gov/mitoDat/
MitoDromeNuclear-encoded mitochondrial proteins of Drosophilahttp://www2.ba.itb.cnr.it/MitoDrome/
MITOMAPHuman mitochondrial genomehttp://www.mitomap.org/
MitomeComparative analysis of metazoan mitochondrial genomeshttp://www.mitome.info
MITOP2Mitochondrial proteins, genes and diseaseshttp://www.mitop2.de/
MitoProteomeExperimentally described human mitochondrial proteinshttp://www.mitoproteome.org
MitoResNuclear genes coding for mitochondrial proteinshttp://www2.ba.itb.cnr.it/MitoNuc/
MMDBAll experimentally-determined 3D structures, linked to NCBI Entrezhttp://www.ncbi.nlm.nih.gov/Structure/
MNCDBMIPS Neurospora crassa databasehttp://mips.gsf.de/proj/neurospora/
Mobile group II intronsDatabase for mobile group II intronshttp://www.fp.ucalgary.ca/group2introns/
ModBaseAnnotated comparative protein structure modelshttp://salilab.org/modbase
MODOMICSDatabase of RNA modification pathwayshttp://genesilico.pl/modomics/
MolliGenGenomic data on mollicuteshttp://cbi.labri.fr/outils/molligen/
MolMovDBDatabase of Macromolecular Movementshttp://bioinfo.mbb.yale.edu/MolMovDB/
Monosaccharide BrowserSpace filling Fischer projections of monosaccharideshttp://www.terravivida.com/vivida/monosaccharide/
MOsDBMIPS Oryza sativa databasehttp://mips.gsf.de/proj/plant/jsf/rice/index.jsp
Mouse Genome DBFormerly mouse genome databasehttp://www.informatics.jax.org
Mouse Phenome DBphenotypic and genotypic data from inbred strains of micehttp://www.jax.org/phenome
Mouse SAGESAGE libraries from various mouse tissues and cell lineshttp://mouse.biomed.cas.cz/sage
Mouse Transposon Insertion DatabaseMouse Transposon Insertion Databasehttp://mouse.ccgb.umn.edu/transposon/
Mouse Tumor BiologyTumor types, genes, classification, incidence, pathologyhttp://tumor.informatics.jax.org
MpactYeast protein-protein interaction datahttp://mips.gsf.de/genre/proj/mpact
MPDBMolecular Probe Databasehttp://www.biotech.ist.unige.it/interlab/mpdb.html
MPIDMHC-Peptide Interaction Databasehttp://surya.bic.nus.edu.sg/mpidt
MPIMP dbMitochondrial protein import machinery of plants and yeasthttp://www.plantenergy.uwa.edu.au/applications/mpimp/
MPromDBMammalian promoter databasehttp://bioinformatics.med.ohio-state.edu/MPromDb
MSY Breakpoint MapperSequence-tagged sites in the human Y chromosomehttp://breakpointmapper.wi.mit.edu
MtbRegListMycobacterium tuberculosis gene regulationhttp://www.USherbrooke.ca/vers/MtbRegList
MtDBMedicago trunculata Databasehttp://www.medicago.org/MtDB
MUGEN Mouse DBMurine models of immune processes and immunological diseaseshttp://www.mugen-noe.org/database/
MulPSSMMultiple PSSMs of structural and sequence familieshttp://hodgkin.mbu.iisc.ernet.in/~mulpssm
MutDBPredicted biochemical effects of human genetic variation: maping of SNPs on protein sequence and structurehttp://mutdb.org/
MvirDBProtein toxins, virulence factors, and antibiotic resistance geneshttp://mvirdb.llnl.gov/
NarcisseConserved syntenies for various animal, plant and bacterial genomeshttp://narcisse.toulouse.inra.fr
NASCarraysNottingham Arabidopsis Stock Centre microarray databasehttp://affymetrix.arabidopsis.info
NATsDBNatural Antisense Transcripts databasehttp://nats.cbi.pku.edu.cn
NCBI Protein databaseAll protein sequences: translated from GenBank and imported from other protein databaseshttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=Protein
NCBI Taxonomy BrowserNames of all organisms that are represented in GenBankhttp://www.ncbi.nlm.nih.gov/Taxonomy/taxonomyhome.html
NCBI Viral GenomesViral genome resource at NCBIhttp://www.ncbi.nlm.nih.gov/genomes/VIRUSES/viruses.html
NCIRNon-Canonical Interactions in RNAhttp://prion.bchs.uh.edu/bp_type/
NCL ResourcePolymorphisms in neuronal ceroid lipofuscinoses geneshttp://www.ucl.ac.uk/ncl/
ncRNAs databaseNon-coding RNAs with regulatory functionshttp://biobases.ibch.poznan.pl/ncRNA/
NDBNucleic acid-containing structureshttp://ndbserver.rutgers.edu/
NegProtNegative Proteome: A tool for comparison of complete proteomeshttp://superfly.ucsd.edu/negprot
NEIbankEyeSAGE, EyeBrowse and Eye Disease Gene databaseshttp://neibank.nei.nih.gov
Nematode.netParasitic nematode sequencing projecthttp://nematode.net/
NEMBASENematode sequence and functional data databasehttp://www.nematodes.org
NESbaseNuclear export signals databasehttp://www.cbs.dtu.dk/databases/NESbase
NetAffxPublic Affymetrix probesets and annotationshttp://www.affymetrix.com/
NetworKINNetwork approach to human protein kinases and their substrateshttp://networkin.info/
NLSdbNuclear localization signalshttp://cubic.bioc.columbia.edu/db/NLSdb/
NMPdbNuclear matrix associated proteins databasehttp://www.rostlab.org/db/NMPdb/
NMPDRDatabase for functional annotation and comparative analysis of microbial genomeshttp://www.nmpdr.org
NONCODEDatabase of noncoding RNAshttp://bioinfo.ibp.ac.cn/NONCODE/index.htm
Non-Human Genome Segmental Duplication DBSegmental duplications in mouse, dog and chicken genomeshttp://projects.tcag.ca/xenodup
NOPdb:Nucleolar proteome databasehttp://www.lamondlab.com/NOPdb/
NORINEDatabase of nonribosomal peptideshttp://bioinfo.lifl.fr/norine/
NPDNuclear Protein Databasehttp://npd.hgu.mrc.ac.uk
NPInterNoncoding RNA-protein interactionshttp://bioinfo.ibp.ac.cn/NPInter/index.php
NPRDNucleosome Positioning Region Databasehttp://srs6.bionet.nsc.ru/srs6bin/cgi-bin/wgetz?page+ LibInfo+-id+2Xnp11RCiPU+-lib+NUCLEOSOME
NRESTdbNatural Rubber EST Databasehttp://genome.ukm.my/nrestdb/
NRSubNon-redundant Bacillus subtilis database at U. Lyonhttp://pbil.univ-lyon1.fr/nrsub/nrsub.html
NTDBThermodynamic data for nucleic acidshttp://ntdb.chem.cuhk.edu.hk
Nuclear Receptor ResourceNuclear receptor superfamilyhttp://nrr.georgetown.edu/NRR/nrrhome.htm
NucleaRDBNuclear receptor superfamilyhttp://www.receptors.org/NR/
NUREBASENuclear hormone receptors databasehttp://www.ens-lyon.fr/LBMC/laudet/nurebase/nurebase.html
NURSANuclear receptor signaling atlashttp://www.nursa.org
ODBOperon databasehttp://odb.kuicr.kyoto-u.ac.jp/
OGDOomycete Genomics Database: ESTs and annotationhttp://www.oomycete.net/
O-GLYCBASEO- and C-linked glycosylation sites in proteinshttp://www.cbs.dtu.dk/databases/OGLYCBASE/
OGReOrganellar Genome Resourcehttp://ogre.mcmaster.ca
Olfactory Receptor DBSequences for olfactory receptor-like moleculeshttp://senselab.med.yale.edu/senselab/ordb/
OMIAOnline Mendelian Inheritance in Animalshttp://omia.angis.org.au/
OMIMOnline Mendelian inheritance in man: A catalog of human genetic and genomic disordershttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=OMIM
OncoDB.HCCOncogenomic database of hepatocellular carcinomahttp://oncodb.hcc.ibms.sinica.edu.tw
OncoMineCancer microarray data by gene or cancer typehttp://www.oncomine.org/
ooTFDObject-oriented transcription factors databasehttp://www.ifti.org/ootfd
Open Proteomics DBMass-spectrometry-based proteomics data for human, yeast, E. coli and Mycobacteriumhttp://bioinformatics.icmb.utexas.edu/OPD/
openSputnikPlant EST clustering and functional annotationNo longer maintained
OPHIDOnline predicted human interaction databaseSuperseded by I2D (no. 897)
OPTICOrthologous and Paralogous Transcripts in Cladeshttp://genserv.anat.ox.ac.uk/
Oral Cancer Gene DBCellular and molecular data for genes involved in oral cancerIncorporated into TGDBs, no. 155
ORegAnnoOpen REGulatory ANNOtation databasehttp://www.oreganno.org/
ORENZAORphan ENZymes databasehttp://www.orenza.u-psud.fr/
ORFanageOrphan ORFs (ORFs with no homologs) in microbial genomesNo longer maintained
ORFDBCollection of ORFs that are sold by Invitrogenhttp://orf.invitrogen.com/
Organelle DBOrganelle proteins and subcellular structureshttp://organelledb.lsi.umich.edu/
Organelle genomesNCBI’s organelle genome resourcehttp://www.ncbi.nlm.nih.gov/genomes/ORGANELLES/organelles.html
OriDBDNA Replication Origin Database: Confirmed and predicted siteshttp://www.oridb.org/
OrthoDBAn hierarchical catalog of orthologous proteins in metazoahttp://cegg.unige.ch/orthodb/browse
OrthoMCLOrthologous protein clusters from multiple genomeshttp://orthomcl.cbil.upenn.edu
OryGenesDBRice genes, T-DNA and Ds flanking sequence tagshttp://orygenesdb.cirad.fr/
Oryza Tag LineT-DNA insertion mutants of ricehttp://urgi.versailles.inra.fr/OryzaTagLine/
OryzabaseRice genetics and genomicshttp://www.shigen.nig.ac.jp/rice/oryzabase/
Osteo-Promoter DBGenes in osteogenic proliferation and differentiationhttp://www.opd.tau.ac.il
PACRATArchaeal and bacterial intergenic sequence featuresNo longer maintained
PA-GOSUBProtein sequences from model organisms, GO assignment and subcellular localizationhttp://www.cs.ualberta.ca/~bioinfo/PA/
PAHdbMutations at the phenylalanine hydroxylase locushttp://www.pahdb.mcgill.ca
PAIDBPathogenicity islands in bacterial genomeshttp://www.gem.re.kr/paidb
PairsDBPairwise alignments of all sequences in UniProthttp://pairsdb.csc.fi
PALIPhylogeny and alignment of homologous protein structureshttp://pauling.mbu.iisc.ernet.in/~pali
PANDITProtein and associated nucleotide domains with inferred treeshttp://www.ebi.ac.uk/goldman-srv/pandit/
PANTHERProtein sequence evolution mapped to functions and pathwayshttp://www.pantherdb.org
PanzeaMaize genome project datahttp://www.panzea.org
ParaDBParalogy mapping in human genomeshttp://abi.marseille.inserm.fr/paradb/
ParameciumDBParamecium genome sequencing projecthttp://paramecium.cgm.cnrs-gif.fr/db/index
PartiGeneDBAssembled partial genomes for ~250 eukaryotic organismshttp://www.partigenedb.org/
PASS2Structural motifs of protein superfamilieshttp://www.ncbs.res.in/~faculty/mini/campass/pass2.html
PathBaseEuropean mutant mice histopathology database: imageshttp://www.pathbase.net/
PathDBBiochemical pathways, compounds and metabolismNo longer maintained
PathguideA listing of pathway, signal transduction and protein-protein interaction databaseshttp://pathguide.org
PathoPlantSignal transduction related to plant-pathogen interactionshttp://www.pathoplant.de
PatomeAnnotated sequences from patents and patent applicationshttp://www.patome.org
PATRICPathoSystems Resource Integration Centerhttps://patric.vbi.vt.edu
PBmicepiggyBac transposon insertions in the mouse genome.http://www.scbit.org/PBmice/
PDBProtein Data Bank: all known protein structureshttp://www.pdb.org/
PDB_TMTransmembrane proteins with known 3D structurehttp://pdbtm.enzim.hu/
PDB-Ligand3D structures of small molecules bound to proteins and nucleic acidshttp://www.idrtech.com/PDB-Ligand/
PDB-REPRDBRepresentative protein chains, based on PDB entrieshttp://mbs.cbrc.jp/pdbreprdb-cgi/reprdb_menu.pl
PDBSite3D structure of protein functional siteshttp://srs6.bionet.nsc.ru/srs6bin/cgi-bin/wgetz?-page+LibInfo+-newId+-lib+PDBSite
PDBsumSummaries and analyses of PDB structureshttp://www.ebi.ac.uk/thornton-srv/databases/pdbsum/
PDZBaseProtein-protein interactions involving PDZ domainshttp://icb.med.cornell.edu/services/pdz/start
PECProfiling of E. coli Chromosomehttp://shigen.lab.nig.ac.jp/ecoli/pec
PEDANTResults of an automated analysis of genomic sequenceshttp://pedant.gsf.de
PEDEPig Expression Data Explorer: Pig cDNA libraries and ESTshttp://pede.dna.affrc.go.jp
PEPPredictions for Entire Proteomeshttp://cubic.bioc.columbia.edu/pep/
PepConfDBDatabase of peptide conformationshttp://www.peptidome.org/products/list.htm
PepCyber:P~PepHuman protein interactions mediated by phosphoprotein-binding domainshttp://PepCyber.umn.edu/PepCyber
PEPRPublic Expression Profiling Resourcehttp://pepr.cnmcresearch.org
PepSeekerPeptide identification and ion information from proteome experimentshttp://nwsr.bms.umist.ac.uk/cgi-bin/pepseeker/pepseek.pl
PeptaibolPeptaibol (antibiotic peptide) sequenceshttp://www.cryst.bbk.ac.uk/peptaibol/
PeptideAtlasPeptides identified in LC-MS/MS proteomics experimentshttp://www.peptideatlas.org
PeroxisomeDBPeroxisomal proteins, metabolic routes and diagnostic toolshttp://www.peroxisomeDB.org
PfamProtein families: Multiple sequence alignments and profile hidden Markov models of protein domainshttp://pfam.sanger.ac.uk/
PFDProtein Folding Database : Experimental data on protein foldinghttp://www.foldeomics.org/pfd/public_html/index.php
PGDBProstate and prostatic diseases gene databasehttp://www.ucsf.edu/pgdb/
PGTdbProkaryotic growth temperature databasehttp://pgtdb.csie.ncu.edu.tw/
PGTdbProkaryotic growth temperature databasehttp://pgtdb.csie.ncu.edu.tw/
PharmGEDPharmacoGenetic Effect Databasehttp://bidd.cz3.nus.edu.sg/phg/
PharmGKBPharmacogenomics and Pharmacogenetics Knowledge Basehttp://www.pharmgkb.org
PhenomicDBComparison of phenotypes of orthologous genes in human and model organismshttp://www.phenomicdb.de
PHEXdbPHEX mutations causing X-linked hypophosphatemiahttp://www.phexdb.mcgill.ca
PHI-baseGenes affecting fungal pathogen-host interactionshttp://www4.rothamsted.bbsrc.ac.uk/phibase/
PhosPhAtArabidopsis Protein Phosphorylation Site Databasehttp://www.plantenergy.uwa.edu.au/applications/phosphat/index.html
Phospho.ELMS/T/Y protein phosphorylation sites (former PhosphoBase)http://phospho.elm.eu.org/
Phospho3D3D structures of protein phosphorylation siteshttp://cbm.bio.uniroma2.it/p3d/
PhyloFactsPhylogenomic analysis of protein familieshttp://phylogenomics.berkeley.edu/phylofacts/
PhylomeDBExperimentally validated and predicted serine phosphorylation sites in Arabidopsis thalianahttp://phylomedb.bioinfo.cipf.es
PhytomeComparative genomics of plant specieshttp://www.phytome.org
Phytophthora Functional Genomics DBESTs and expression data from P. infestans and P. sojaehttp://www.pfgd.org/pfgd/
PhytoProtClusters of (predicted) plant proteinshttp://urgi.versailles.inra.fr/phytoprot/
PIDDProtein inter-atomic distances databasehttp://pidd.math.iastate.edu
PigGISPig genome mapping, genes and ESTshttp://pig.genomics.org.cn/
PINdbProteins interacting in nucleus (human and yeast)http://pin.mskcc.org
PINTProtein-protein interactions thermodynamic databasehttp://pintdb.dyndns.org/index.html
PIRProtein Information Resourcehttp://pir.georgetown.edu
piRNABankSequences and properties of Piwi-interacting RNAs (piRNAs) in human, mouse and rathttp://pirnabank.ibab.ac.in/
PIRSFFamily/superfamily classification of whole proteinshttp://pir.georgetown.edu/pirsf/
PLACEPlant cis-acting regulatory DNA elementshttp://www.dna.affrc.go.jp/PLACE/
Plant DNA C-values DatabaseGenome sizes of various plants and algaehttp://www.kew.org/genomesize/homepage.html
Plant Genome CentralNCBI’s portal for various large-scale plant genome and EST sequencing projectshttp://www.ncbi.nlm.nih.gov/genomes/PLANTS/PlantList.html
Plant MPSSMassively parallel signature sequencing of plant geneshttp://mpss.udel.edu
Plant Ontology DBControlled vocabulary of plant structures and growth stageshttp://www.plantontology.org
Plant Organelles DBImages and protocols for plant organelle researchhttp://podb.nibb.ac.jp/Organellome
Plant snoRNA DBsnoRNA genes in plant specieshttp://bioinf.scri.sari.ac.uk/cgi-bin/plant_snorna/home
Plant Stress-Responsive Gene CatalogStress-responsive gene in various plant specieshttp://dayhoff.generationcp.org
PlantCAREPlant promoters and cis-acting regulatory elementshttp://bioinformatics.psb.ugent.be/webtools/plantcare/html/
PlantGDBPlant genome database: Actively-transcribed plant geneshttp://www.plantgdb.org/
PlantMarkersDatabase of predicted molecular markers from plantshttp://markers.btk.fi
PLANT-PIsPlant protease inhibitorshttp://bighost.area.ba.cnr.it/PLANT-Pis
PlantPromPlant promoter sequences for RNA polymerase IIhttp://mendel.cs.rhul.ac.uk/mendel.php?topic=plantprom
PlantQTL-GEQuantitative trait locus analysis in Arabidopsis and ricehttp://www.scbit.org/qtl2gene
PlantsP/PlantsTPlant proteins involved in phosphorylation and transporthttp://plantsp.sdsc.edu
PlantTFDBPlant Transcription Factor Databasehttp://planttfdb.cbi.pku.edu.cn
PlantTribesFamilies of protein-coding genes from five sequenced plant specieshttp://www.floralgenome.org/tribe.php
PlasmIDA repository for collection and distribution of plasmid cloneshttp://plasmid.hms.harvard.edu/
PlasmoDBPlasmodium genome databasehttp://PlasmoDB.org
PLMItRNAMitochondrial tRNA genes in photosynthetic eukaryoteshttp://bighost.area.ba.cnr.it/PLMItRNA/
PLPMDBPyridoxal-5′-phosphate dependent enzymes mutationshttp://www.studiofmp.com/plpmdb/
PLprotPlastid protein databasehttp://www.plprot.ethz.ch/
PMDB3D protein models obtained from structure predictionshttp://www.caspur.it/PMDB/
POGs/PlantRBPOrthologous groups of RNA binding proteins in plantshttp://plantrbp.uoregon.edu
POINTPrediction of human protein-protein interactomehttp://point.bioinformatics.tw
PolyA_DBDatabase of mammalian mRNA polyadenylationhttp://polya.umdnj.edu/
PolyDomsHuman coding SNPs mapped onto protein domainshttp://polydoms.cchmc.org
PolymiRTSPolymorphism in microRNA Target Sitehttp://compbio.utmem.edu/miRSNP/
PolymorphixDatabase of sequence polymorphismshttp://pbil.univ-lyon1.fr/polymorphix/query.php
PoMaMoPotato Maps and Morehttps://gabi.rzpd.de/PoMaMo.html
Poxvirus.orgPoxvirus genomic sequences and gene annotationhttp://www.poxvirus.org
PPDExperimentally-determined protein pKa valueshttp://www.jenner.ac.uk/ppd/
PPDBPlant promoter databasehttp://ppdb.gene.nagoya-u.ac.jp
PPNEMAPlant-parasitic nematode rRNAshttp://www.ppnema.uniba.it/
PPT-DBProtein Property Prediction and Testing Databasehttp://redpoll.pharmacy.ualberta.ca/PPT_DB/public_html/PPT_main.html
PRECISEPredicted and Consensus Interaction Sites in Enzymeshttp://precise.bu.edu/precisedb/
PReModPredicted transcriptional regulatory modules in the human genomehttp://genomequebec.mcgill.ca/PReMod
PRFProtein research foundation database of peptideshttp://www.prf.or.jp/en/index.shtml
PRIDEProteomics peptide identification databasehttp://www.ebi.ac.uk/pride/
Primer StudioPCR primers for eukaryotic and prokaryotic geneshttp://bioinfo.ebc.ee/PrimerStudio/
PRINTSHierarchical gene family fingerprintshttp://umber.sbs.man.ac.uk/dbbrowser/PRINTS/
Pristionchus.orgGenome data of the nematode Pristionchus pacificushttp://www.pristionchus.org
probeBaserRNA-targeted oligonucleotide probe sequences, DNA microarray layouts, and associated informationhttp://www.microbial-ecology.net/probebase
PROCOGNATEProtein cognate ligands for the domains in enzyme structureshttp://www.ebi.ac.uk/thornton-srv/databases/procognate/index.html
ProDomProtein domain familieshttp://prodom.prabi.fr/
PRODORICProkaryotic database of gene regulation networkshttp://prodoric.tu-bs.de/
ProLysEDDatabase of bacterial protease systemshttp://genome.ukm.my/prolyses/
ProlysisProteases and natural and synthetic protease inhibitorshttp://delphi.phys.univ-tours.fr/Prolysis/
PromECE. coli promoters with experimentally-identified transcriptional start siteshttp://margalit.huji.ac.il/promec/
PROMISEProsthetic centers and metal ions in protein active siteshttp://metallo.scripps.edu/PROMISE/
ProNITProtein-nucleic acid interactionshttp://gibk26.bse.kyutech.ac.jp/jouhou/pronit/pronit.html
PROPHECYProfiling of phenotypic characteristics in yeasthttp://prophecy.lundberg.gu.se/
ProRuleFunctional and structural information on PROSITE profileshttp://www.expasy.org/prosite/prorule.html
ProSASProtein Structure and Alternative Splicing: effects of alternative splicing events on protein structurehttp://services.bio.ifi.lmu.de/ProSAS
PROSITEBiologically-significant protein patterns and profileshttp://www.expasy.org/prosite
Prostate Expression DBProstate expression database: ESTs from prostate tissue and cell type-specific cDNA librarieshttp://www.pedb.org/
PROTCOM3D structures of two-chain protein complexeshttp://www.ces.clemson.edu/compbio/protcom
Protein kinase resourceProtein kinase resource: sequences, enzymology, genetics and molecular and structural propertieshttp://www.kinasenet.org/pkr/
Protein Mutant DBCompilation of protein mutant datahttp://pmd.ddbj.nig.ac.jp/
ProTeusSignature sequences at the protein N- and C-terminihttp://www.proteus.cs.huji.ac.il
ProThermThermodynamic data for wild-type and mutant proteinshttp://gibk26.bse.kyutech.ac.jp/jouhou/protherm/protherm.html
ProTISATranslation Initiation Site Annotation in prokaryotic genomeshttp://mech.ctb.pku.edu.cn/protisa/
ProtoMapHierarchical classification of Swiss-Prot proteinshttp://protomap.cornell.edu
ProtoNetHierarchical clustering of Swiss-Prot proteinshttp://www.protonet.cs.huji.ac.il/
ProtozoaDBComparative analysis of protozoan genomeshttp://protozoa.biowebdb.org/
PRRDBPattern recognition receptors and their ligandshttp://www.imtech.res.in/raghava/prrdb/
PRTADProtein residue torsion angle databasehttp://www.math.iastate.edu/prtad
PseudoBaseDatabase of RNA pseudoknotshttp://wwwbio.leidenuniv.nl/~Batenburg/PKB.html
PseudoCAPPseudomonas aeruginosa community genome annotation projecthttp://www.pseudomonas.com/
PseudoGene.orgPseudogenes in eukaryotic and prokaryotic genomeshttp://www.pseudogene.org/
PSIbaseInteraction of proteins with known 3D structureshttp://psimap.org/index.php/PSIMAP
PSORTdbProtein subcellular localization in bacteriahttp://db.psort.org/
pSTIINGProtein signalling, transcriptional interactions and inflammation networks gatewayhttp://pstiing.licr.org/
PTCH1 Mutation DBMutations and SNPs found in PTCH1 genehttp://www.cybergene.se/cgi-bin/w3-msql/ptchbase/index.html
PubChemStructures and biological activities of small organic moleculeshttp://pubchem.ncbi.nlm.nih.gov/
PubMedCitations and abstracts of biomedical literaturehttp://pubmed.gov
PubMethLinks between DNA methylation levels and cancerhttp://matrix.ugent.be/pubmeth/
PUMA2Metabolic analysis of complete microbial genomeshttp://compbio.mcs.anl.gov/puma2/
QPPDQuantitative PCR Primer Databasehttp://web.ncifcrf.gov/rtp/GEL/primerdb/default.asp
qPrimerDepotQuantitative real time PCR primers for human RefSeq sequenceshttp://primerdepot.nci.nih.gov/
QTL MatchmakerQuantitative trait loci mapping in human, mouse and rathttp://pmrc.med.mssm.edu:9090/QTL/jsp/qtlhome.jsp
QuadBaseG-quadruplex motifs in the promoters of human, chimpanzee, rat, mouse and bacterial geneshttp://quadbase.igib.res.in/
R.E.DD.B.RESP and ESP atomic charges and force field libraries for small molecules and molecular fragmentshttp://q4md-forcefieldtools.org/REDDB
RAP-DBRice annotation project databasehttp://rapdb.dna.affrc.go.jp/
RARGERIKEN Arabidopsis genome encyclopedia: cDNAs, mutants and microarray datahttp://rarge.gsc.riken.jp/
Rat Genome DatabaseRat genetic and genomic datahttp://rgd.mcw.edu
RatMapRat genome tools and datahttp://ratmap.org
RB1 Gene Mutation DBMutations in the human retinoblastoma (RB1) genehttp://www.verandi.de/joomla/
RDP-IIRibosomal Database Projecthttp://rdp.cme.msu.edu
ReactomeDatabase of metabolic and signaling pathwayshttp://www.reactome.org/
REBASERestriction enzymes and associated methylaseshttp://rebase.neb.com/rebase/rebase.html
RECODEGenes using programmed translational recoding in their expressionhttp://recode.genetics.utah.edu
REDflyRegulatory modules and transcription factor binding sites in Drosophilahttp://redfly.ccr.buffalo.edu
REDIdbAn RNA editing databasehttp://biologia.unical.it/py_script/search.html
RefExAReference database for human gene expression analysishttp://www.lsbm.org/site_e/database/index.html
REFOLDExperimental data on protein refolding and purificationhttp://refold.med.monash.edu.au
RefSeqReference Sequence database: an integrated, non-redundant set of genomic DNA, RNA, and protein sequenceshttp://www.ncbi.nlm.nih.gov/RefSeq/
RegTransBaseManually curated database of regulatory interactions in prokaryoteshttp://regtransbase.lbl.gov
RegulonDBTranscriptional regulation and operon organization in E.colihttp://regulondb.ccg.unam.mx/
RESIDPost-translational modifications of proteinshttp://www.ebi.ac.uk/RESID/
RetrOryzaLTR-retrotransposons in ricehttp://www.retroryza.org
RfamNon-coding RNA familieshttp://www.sanger.ac.uk/Software/Rfam/
RHdbRadiation hybrid map datahttp://www.ebi.ac.uk/RHdb
Rice Annotation DBContig data for manual annotation of rice genomehttp://golgi.gs.dna.affrc.go.jp/SY-1102/rad/index.html
Rice Mutant DatabaseRice mutant databasehttp://rmd.ncpgr.cn/
Rice PipelineUnification tool for rice databaseshttp://cdna01.dna.affrc.go.jp/PIPE
Rice Proteome DBRice proteome databasehttp://gene64.dna.affrc.go.jp/RPD/main_en.html
RiceGAASRice genome automated annotation systemhttp://ricegaas.dna.affrc.go.jp/
RIDOMRibosomal Differentiation of Medical Microorganismshttp://www.ridom.de/
RISSCRibosomal Internal Spacer Sequence Collectionhttp://egg.umh.es/rissc
RNA FRABASEDatabase of 3D RNA fragments within known RNA structureshttp://rnafrabase.ibch.poznan.pl/
RNA Modification DBNaturally modified nucleosides in RNAhttp://medlib.med.utah.edu/RNAmods/
RNA SSTRANDRNA secondary structure data and structural motifshttp://www.rnasoft.ca/sstrand
RNABaseRNA-containing structures from PDB and NDBhttp://www.rnabase.org
RNAdbMammalian noncoding RNA databasehttp://ncrna.bioinformatics.com.au
RNAi codexClones from mouse, human and rat shRNA librarieshttp://codex.cshl.org
RNAiDBRNAi phenotypic analysis of C. elegans geneshttp://www.rnai.org/
RNAJunctionRNA structural elements: helical junctions, internal loops, bulges and loop-loop interactionshttp://rnajunction.abcc.ncifcrf.gov
RNAse P DatabaseRibonuclease P sequences, alignments and structureshttp://www.mbio.ncsu.edu/RNaseP/home.html
RNRdbRibonucleotide reductase databasehttp://rnrdb.molbio.su.se/
rOGEDRat ovarian gene expression databasehttp://app.mc.uky.edu/kolab/rogedendo.aspx
ROSPathReactive oxygen species (ROS) signaling pathwayhttp://rospath.ewha.ac.kr
RoundupRepository of orthologs and corresponding evolutionary distanceshttp://rodeo.med.harvard.edu/tools/roundup
RPGRibosomal Protein Gene databasehttp://ribosome.miyazaki-med.ac.jp/
RRNDBrRNA operon numbers in various prokaryoteshttp://rrndb.cme.msu.edu
RsGDBRhodobacter sphaeroides genomehttp://www.hgsc.bcm.tmc.edu/projects/microbial/Rsphaeroides/
rSNP GuideSNPs in regulatory gene regionshttp://wwwmgs.bionet.nsc.ru/mgs/systems/rsnp/
RTCGDRetroviral Tagged Cancer Gene Databasehttp://rtcgd.ncifcrf.gov/
RTKdbReceptor Tyrosine Kinase databasehttp://pbil.univ-lyon1.fr/RTKdb/
RTPrimerDBReal-time PCR primer and probe sequenceshttp://medgen.ugent.be/rtprimerdb/
S/MARt DBNuclear scaffold/matrix attached regionshttp://smartdb.bioinf.med.uni-goettingen.de/
S4Structure-based Sequence Alignments of SCOP Superfamilieshttp://compbio.mds.qmw.ac.uk/~james/S4.shtml
SAGEmapNCBI’s resource for SAGE data from various organismshttp://www.ncbi.nlm.nih.gov/SAGE
SARS-CoV RNA SSSPredicted secondary structures of SARS coronavirus RNAhttp://www.liuweibo.com/sarsdb/
SBASEProtein domain sequences and toolshttp://www.icgeb.org/sbase
SCAdbSpinocerebellar ataxia candidate gene databasehttp://ymbc.ym.edu.tw/sca_ensembl/
SCMDSaccharomyces cerevisiae morphological database: micrographs of budding yeast mutantshttp://yeast.gi.k.u-tokyo.ac.jp/
SCOPStructural classification of proteinshttp://scop.mrc-lmb.cam.ac.uk/scop
SCOPECMapping of catalytic function to domain structurehttp://www.sbinf.org/~richard/enzome/
SCOPPIStructural classification of protein-protein interfaceshttp://www.scoppi.org
SCORStructural classification of RNA: RNA motifs by structure, function and tertiary interactionshttp://scor.lbl.gov
ScorpionDatabase of scorpion toxinshttp://sdmc.i2r.a-star.edu.sg/scorpion/
SCPDSaccharomyces cerevisiae promoter databasehttp://rulai.cshl.edu/SCPD/
SCPDSaccharomyces cerevisiae promoter databasehttp://rulai.cshl.edu/SCPD/
SDAPStructural database of allergenic proteins and food allergenshttp://fermi.utmb.edu/SDAP
SebidaSex bias in insect gene expression databasehttp://www.sebida.de
Secreted Protein DBSecreted proteins from human, mouse and rathttp://spd.cbi.pku.edu.cn
SeedGenesGenes essential for Arabidopsis developmenthttp://www.seedgenes.org/
SelenoDBDatabase of selenoprotein genes, proteins and SECIS elementshttp://www.selenodb.org/
SELEXdbSelected DNA/RNA functional site sequenceshttp://wwwmgs.bionet.nsc.ru/mgs/systems/selex/
SENTRASensory signal transduction proteinshttp://compbio.mcs.anl.gov/sentra/
SEVENS7-transmembrane helix receptors (G-protein-coupled)http://sevens.cbrc.jp/1.20/
SGCEdbStructural genomics of C. elegansNo longer maintained
SGDSaccharomyces genome databasehttp://www.yeastgenome.org/
SGMDSoybean genomics and microarray databasehttp://psi081.ba.ars.usda.gov/SGMD/default.htm
Shanghai Rapeseed DatabaseSeed development and fatty acid metabolism of oilseed cropshttp://rapeseed.plantsignal.cn
ShiBaseShigella databasehttp://www.mgc.ac.cn/ShiBASE/
SIDDBaseStress-induced DNA duplex destabilization profiles of complete microbial genomeshttp://www.genomecenter.ucdavis.edu/benham/siddbase/
SIEGESmoking Induced Epithelial Gene Expressionhttp://pulm.bumc.bu.edu/siegeDB
SilkDBSilkworm Bombyx mori ESTs, mutants, photographshttp://www.ab.a.u-tokyo.ac.jp/genome/
SilkSatDbA microsatellite database of the silkworm Bombyx morihttp://210.212.212.7:9999/PHP/SILKSAT/index.php
SIMAPSimilarity matrix of proteins: precomputed similarity datahttp://mips.gsf.de/simap/
siRecordsExperimentally tested mammalian siRNAshttp://sirecords.umn.edu/siRecords/
siRNAdbFunctional human siRNA sequenceshttp://sirna.cgb.ki.se
SISYPHUSStructural alignments for proteins with non-trivial relationshipshttp://sisyphus.mrc-cpe.cam.ac.uk
SitesBaseKnown ligand binding sites in the PDBhttp://www.modelling.leeds.ac.uk/sb/
SKY/M-FISH and CGHFluorescent images of chromosomes and cytogenetic datahttp://www.ncbi.nlm.nih.gov/sky/
SLoopClassification of protein loopshttp://www-cryst.bioc.cam.ac.uk/~sloop/
Small RNA DatabaseNo longer maintained 
SMARTSimple modular architecture research tool: signalling, extracellular and chromatin-associated protein domainshttp://smart.embl-heidelberg.de
SmedGDThe Schmidtea mediterranea genome databasehttp://smedgd.neuro.utah.edu
SNAPAn integrated SNP Annotation Platformhttp://platform.humgen.au.dk/
SNAPPIStructures, iNterfaces and Alignments for Protein-Protein Interactionshttp://www.compbio.dundee.ac.uk/SNAPPI/downloads.jsp
Sno/scaRNAbaseSmall nucleolar RNAs and cajal body-specific RNAshttp://gene.fudan.sh.cn/snoRNAbase.nsf
snoRNA-LBME-dbHuman snoRNAs and Cajal body-specific RNAs (scaRNAs)http://www-snorna.biotoul.fr/
SNP@EthnosHuman SNPs and genes that contain human ethnic variationhttp://bioportal.kobic.re.kr/SNPatETHNIC/
SNP2NMDHuman SNPs causing nonsense-mediated mRNA decayhttp://variome.kobic.re.kr/SNP2NMD/
SNP500CancerRe-sequenced SNPs from 102 reference sampleshttp://snp500cancer.nci.nih.gov
SNPeffect & PupaSuitePhenotypic effects of human coding SNPshttp://snpeffect.vib.be/
SNPSTRMicrosatellite compound markers in 5 vertebrate genomeshttp://www3.imperial.ac.uk/theoreticalgenomics/data-software
SOURCEFunctional genomics resource for human, mouse and rathttp://source.stanford.edu
SoyBaseGenetic, genomic and phenotypic information about soybeanhttp://soybase.org
SoyGDSoybean genome databasehttp://soybeangenome.siu.edu
SPEEDSearchable prototype experimental evolutionary databasehttp://bioinfobase.umkc.edu/speed/speed_main.htm
SpliceDBCanonical and non-canonical mammalian splice siteshttp://www.softberry.com/berry.phtml?topic=splicedb&group=data&subgroup=spldb
SpliceInfoModes of alternative splicing in human genomehttp://spliceinfo.mbc.nctu.edu.tw/
SpliceNestVisualizing Splicing of Genes from EST Datahttp://splicenest.molgen.mpg.de/
SpodoBaseGenomics of the butterfly Spodoptera frugiperdahttp://bioweb.ensam.inra.fr/spodobase/
SRPDBSignal recognition particle databasehttp://rnp.uthct.edu/rnp/SRPDB/SRPDB.html
SSToSSSequence-Structural Templates of Single-member Superfamilieshttp://caps.ncbs.res.in/SSTOSS/index.htm
STACKSequence tag alignment and consensus knowledgebasehttp://www.sanbi.ac.za/Dbases.html
Stanford Microarray DBRaw and normalized data from microarray experimentshttp://genome-www.stanford.edu/microarray
STCDBSignal Transduction Classification Databasehttp://bibiserv.techfak.uni-bielefeld.de/stcdb/
StellaBaseNematostella vectensis (sea anemone) genomehttp://stellabase.org.
STING ReportAmino acid properties in proteins of known structurehttp://sms.cbi.cnptia.embrapa.br/SMS/STINGm/SMSReport/
STITCHSearch Tool for Interactions of Chemicalshttp://stitch.embl.de
STRBaseShort tandem DNA repeats databasehttp://www.cstl.nist.gov/div831/strbase/
STRINGPredicted functional associations between proteinshttp://string.embl.de/
Structurally conserved interfacesInteracting residues in protein-protein interfaces in PDBhttp://home.ku.edu.tr/~okeskin/INTERFACE/INTERFACES.html
Structure Superposition DatabasePairwise superpositions of 115 TIM-barrel structureshttp://ssd.rbvi.ucsf.edu/
SUBASubcellular localisation of Arabidopsis proteinshttp://www.suba.bcs.uwa.edu.au/
SubtiListBacillus subtilis genome database at Institut Pasteurhttp://genolist.pasteur.fr/SubtiList/
Subviral RNA DBDatabase of viroids and viroid-like RNAshttp://subviral.med.uottawa.ca/
Sulfolobus DatabaseComparative genomics of Sulfolobus specieshttp://www.sulfolobus.org
SuperCATDatabase for multilocus sequence typing analysis of the Bacillus cereus group of bacteriahttp://mlstoslo.uio.no/
SuperDrug2D and 3D chemical structures of various drugshttp://bioinformatics.charite.de/superdrug
SUPERFAMILYAssignments of proteins to structural superfamilieshttp://supfam.org/SUPERFAMILY/
SuperHaptenA comprehensive database for small immunogenic compoundshttp://bioinformatics.charite.de/superhapten
SuperNaturalNatural compounds and their suppliershttp://bioinformatics.charite.de/supernatural
SuperTargetDrug-related information: medical indications, adverse drug effects, drug metabolism and Gene Ontology terms of the target proteinshttp://insilico.charite.de/supertarget
SUPFAMGrouping of sequence families into superfamilieshttp://pauling.mbu.iisc.ernet.in/~supfam
SURFACESurface residues and functions annotated, compared and evaluated: a database of protein surface patcheshttp://cbm.bio.uniroma2.it/surface
SV40 Large T-Antigen Mutant DatabaseMutations in SV40 large tumor antigen genehttp://supernova.bio.pitt.edu/pipaslab/
SWEET-DBAnnotated carbohydrate structure and substance informationhttp://www.dkfz-heidelberg.de/spec2/sweetdb/
SWISS-2DPAGEAnnotated 2D gel electrophoresis databasehttp://www.expasy.org/ch2d/
SWISS-MODEL Repository3D protein structure models generated by automated homology modeling using SWISS-MODELhttp://swissmodel.expasy.org/repository
SwissRegulon databaseGenome-wide annotations of regulatory sites in the intergenic regionshttp://www.swissregulon.unibas.ch
SynDBSynapse protein databasehttp://syndb.cbi.pku.edu.cn
Synthetic Gene DBSynthetic genes described in peer-reviewed literaturehttp://www.evolvingcode.net/codon/sgdb/index.php
SYSTERSSystematic re-searching and clustering of proteinshttp://systers.molgen.mpg.de/
SYSTOMONASSYSTems biology of pseudOMONAShttp://www.systomonas.de/
T1DbaseA resource for type 1 diabetes researchhttp://t1dbase.org
T4-like genome DBSequences of T4-like bacteriophages from various sourceshttp://phage.bioc.tulane.edu
TAEDThe Adaptive Evolution Database: plant and chordate gene familieshttp://www.bioinfo.no/tools/TAED
TAIRThe Arabidopsis information resourcehttp://www.arabidopsis.org/
TargetDBTarget data from worldwide structural genomics projectshttp://targetdb.pdb.org/
TassDBTAndem Splice Site Databasehttp://helios.informatik.uni-freiburg.de/TassDB/
TBestDBTaxonomically broad EST database: protist ESTshttp://tbestdb.bcm.umontreal.ca/
TCDBTransporter protein classification databasehttp://www.tcdb.org/
TcruziDBTrypanosoma cruzi genome databasehttp://tcruzidb.org/
TECRdbThermodynamics of enzyme-catalyzed reactionshttp://xpdb.nist.gov/enzyme_thermodynamics
TEDTomato expression databasehttp://ted.bti.cornell.edu
Telomerase databaseSequences and structures of the RNA and protein subunits of telomerase, mutations of telomerase componentshttp://telomerase.asu.edu
TESSTranscription element search systemhttp://www.cbil.upenn.edu/tess
Tetrahymena Genome DBTetrahymena thermophila genome databasehttp://www.ciliate.org
The Autism Chromoso-me Rearrangement DBCurated collection of genomic features related to autismhttp://projects.tcag.ca/autism
The Cell Cycle DBGenes and proteins involved in human and yeast cell cyclehttp://www.itb.cnr.it/cellcycle
The Chromosome 7 Annotation ProjectHuman chromosome 7 sequence and annotationhttp://www.chr7.org
The Lafora DatabaseThe Lafora progressive myoclonus epilepsy mutation and polymorphism databasehttp://projects.tcag.ca/lafora/
The Small Subunit rRNA Modification DBModified nucleosides in small subunit rRNAhttp://library.med.utah.edu/SSUmods/
THGSTransmembrane Helices in Genome Sequenceshttp://pranag.physics.iisc.ernet.in/thgs/
TIGR Comprehensive Microbial ResourceVarious data on complete microbial genomes: Uniform annotation, properties of DNA and predicted proteinshttp://www.tigr.org/tigr-scripts/CMR2/CMRHomePage.spl
TIGR Gene IndicesOrganism-specific databases of EST and gene sequenceshttp://www.tigr.org/tdb/tgi.shtml
TIGR Maize databaseMaize genome sequencing consortium sitehttp://maize.tigr.org
TIGR Microbial DBA list of microbial genome sequencing projectsNo longer maintained
TIGR plant repeat DBClassification of repetitive sequences in plant genomeshttp://www.tigr.org/tdb/e2k1/plant.repeats
TIGR Plant Transcript Assembly databaseTranscript assemblies of plant EST and cDNA sequenceshttp://plantta.tigr.org
TIGRFAMsTIGR protein families adapted for functional annotationhttp://www.tigr.org/TIGRFAMs
TiProDTissue-specific promoter databasehttp://tiprod.cbi.pku.edu.cn:8080/index.html
TMADThe Stanford Tissue Microarray Databasehttp://tma.stanford.edu
TmaDBTissue microarray databasehttp://www.bioinformatics.leeds.ac.uk/tmadb/
TMBETA-GENOMEBeta-barrel membrane proteins encoded in various genomeshttp://tmbeta-genome.cbrc.jp/annotation/
tmRDBtmRNA databasehttp://rnp.uthct.edu/rnp/tmRDB/tmRDB.html
tmRNA WebsitetmRNA sequences and alignmentshttp://www.indiana.edu/~tmrna
TomatEST DBEST collection from multiple tomato specieshttp://biosrv.cab.unina.it
TopDBTopology Data Bank of transmembrane proteinshttp://topdb.enzim.hu
TOPOFIT-DBProtein structural alignments based on the TOPOFIT methodhttp://mozart.bio.neu.edu/topofit/
TopoSNPTopographic database of non-synonymous SNPshttp://gila.bioengr.uic.edu/snp/toposnp
TOPSTopology Of Protein Structureshttp://www.tops.leeds.ac.uk
ToxoDBToxoplasma gondii genome databasehttp://ToxoDB.org
TPMDTaiwan polymorphic microsatellite marker databasehttp://tpmd.nhri.org.tw
Tractor_DBTranscription factors in gamma-proteobacteria databasehttp://www.tractor.lncc.br
TRANSCompel®Transcriptional regulation, composite regulatory elementshttp://www.gene-regulation.com/pub/ databases.html#transcompel
TRANSFAC®Transcription factors, gene regulation, positional weight matriceshttp://www.gene-regulation.com
TransfactomeDBNucleotide sequence specificity and condition-specific regulatory activity of trans-acting factorshttp://bussemakerlab.org/YeastTransfactomeDB/
Transmembrane Protein DatabaseTransmembrane proteins with experimentally-characterized transmembrane topologieshttp://bioinfo.si.hirosaki-u.ac.jp/~TMPDB/
TRANSPATHSignal transduction pathways, vizualization and expression data analysishttp://www.biobase.de/pages/products/databases.html
TranspoGeneTransposed elements influence on the transcriptome of seven vertebrates and invertebrateshttp://transpogene.tau.ac.il/
TransportDBPredicted membrane transporters in complete genomes, classified according to the TC classification systemhttp://www.membranetransport.org
TranstermCodon usage, start and stop signalshttp://guinevere.otago.ac.nz/transterm.html
TRBaseTandem repeats in the human genomehttp://trbase.ex.ac.uk/
TRDBTandem repeats in genomic DNAhttp://tandem.bu.edu/cgi-bin/trdb/trdb.exe
TREDTranscriptional regulatory element databasehttp://rulai.cshl.edu/tred
Tree of LifeInformation on phylogeny and biodiversityhttp://phylogeny.arizona.edu/tree/phylogeny.html
TreeBasePhylogenetic trees and the data matrices used to generate themhttp://www.treebase.org/
TreeFamTree families database: phylogenetic trees of animal geneshttp://www.treefam.org
T-REGsA list of TGFbeta-responsive genesNo longer maintained
TRIPLESTransposon-insertion phenotypes, localization, and expression in Saccharomyceshttp://ygac.med.yale.edu/triples/
tRNA SequencesHas not been updated 
trome, trEST, trGENDatabases of predicted human protein sequencesftp://ftp.isrec.isb-sib.ch/pub/databases/
TropGENE DBGenes and genomes of sugarcane, banana, cocoahttp://tropgenedb.cirad.fr/
TRRDTranscription regulatory regions of eukaryotic geneshttp://www.bionet.nsc.ru/trrd/
TrSDBTranscription factor databasehttp://bioinf.uab.es/cgi-bin/trsdb/trsdb.pl
TTDTherapeutic target databasehttp://xin.cz3.nus.edu.sg/group/cjttd/ttd.asp
Tumor Gene Family Databases (TGDBs)Cellular, molecular and biological data about genes involved in various cancershttp://www.tumor-gene.org/tgdf.html
Tumor-Associated Genes DatabaseTumor-associated genes databasehttp://www.binfo.ncku.edu.tw/TAG/GeneDoc.php
U12DBDatabase of orthologous U12-type spliceosomal intronshttp://genome.imim.es/cgi-bin/u12db/u12db.cgi
UCSC Archaeal Genome BrowserPyrococcus furiosus genome browserhttp://archaea.ucsc.edu/
UCSC Genome BrowserGenome assemblies and annotationhttp://genome.ucsc.edu/
UCSD-Nature Signaling GatewayExpert-authored and peer-reviewed information on mammalian proteins involved in cellular signalinghttp://www.signaling-gateway.org/molecule/
U-genomeGenome organization in unicellular eukaryoteshttp://sege.ntu.edu.sg/wester/ugenome/
UgMicroSatdbUniGene MicroSatellite database: short tandem repeats from various eukaryotic genomeshttp://ipu.ac.in/usbt/UgMicroSatdb.htm
UK CropNetGenome mapping in crop plantshttp://ukcrop.net/
UM-BBDUniversity of Minnesota biocatalysis and biodegradation databasehttp://umbbd.msi.umn.edu/
UMLSUnified medical language systemRequires user registration
UniGeneUnified clusters of ESTs and full-length mRNA sequenceshttp://www.ncbi.nlm.nih.gov/UniGene/
UniHIUnified Human Interactome: human protein-protein interactionshttp://www.mdc-berlin.de/unihi
UniParcUniProt archive, a repository of all protein sequenceshttp://www.uniprot.org/database/archive.shtml
UniProtUniversal Protein knowledgebase, combined information from Swiss-Prot, TrEMBL, and PIRhttp://www.uniprot.org
UniProtKB\Swiss-ProtFormerly SwissProt, part of the UniProt knowledgebasehttp://www.expasy.org/sprot
UniProtKB\TrEMBLNow UniProt/TrEMBL, part of the UniProt knowledgebasehttp://www.uniprot.org/database/knowledgebase.shtml
UniRefClustered sets of related sequences from UniProthttp://www.uniprot.org/database/nref.shtml
UniSaveUniProtKB Sequence/Annotation Version Archivehttp://www.ebi.ac.uk/uniprot/unisave/
UniSTSUnified view of sequence tagged sites with mapping datahttp://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=unists
UniTrapUnambiguous insertions in the same subgenic regions of annotated mouse geneshttp://unitrap.cbm.fvg.it/
UniVecVector sequences, adapters, linkers and primers used in DNA cloning, used to check for vector contaminationhttp://www.ncbi.nlm.nih.gov/VecScreen/UniVec.html
University of Pittsburgh Bioinformatics Resources CollectionA collection of bioinformatic databases and software toolshttp://www.hsls.pitt.edu/guides/genetics/obrc/
UTGB/medakaUniversity of Tokyo Genome Browser of medaka fish (Oryzias latipes) genomic datahttp://medaka.utgenome.org/
UTRdb/UTRsite5′- and 3′-UTRs of eukaryotic mRNAshttp://bighost.area.ba.cnr.it/BIG/UTRHome/
UTRome3’UTRs and their functional elements in C. eleganshttp://www.utrome.org
VBASE2Variable genes from the Ig loci of human and mousehttp://www.vbase2.org/
VBI Microbial DatabaseVirginia Bioinformatics Institute microbial databasehttp://phytophthora.vbi.vt.edu
VectorBaseInvertebrate Vectors of Human Pathogenshttp://www.vectorbase.org
VectordbCharacterization and classification of nucleic acid vectorshttp://seq.yeastgenome.org/vectordb/
VEGAVertebrate genome annotation: a repository for manual annotation of finished vertebrate genome sequenceshttp://vega.sanger.ac.uk/
VFDBVirulence Factors of pathogenic bacteriahttp://www.mgc.ac.cn/cgi-bin/VFs/compatho.cgi
VIDAHomologous viral protein families databasehttp://www.biochem.ucl.ac.uk/bsm/virus_database/VIDA.html
VIOLINVaccine Investigation and Online Information Networkhttp://www.violinet.org
VIPERdbVirus particle explorer: Virus capsid structureshttp://viperdb.scripps.edu/
Viral Bioinformatics Resource CenterVirus orthologous genes, gene families and genomeshttp://www.biovirus.org
VirGenCurated database for complete viral genome sequenceshttp://bioinfo.ernet.in/virgen/virgen.html
Vir-Mir dbPrediction of viral microRNA candidate hairpinshttp://alk.ibms.sinica.edu.tw
VirOligoVirus-specific oligonucleotides for PCR and hybridizationhttp://viroligo.okstate.edu
VISTA Enhancer BrowserEnhancer elements in the human genomehttp://enhancer.lbl.gov/
ViTamicroRNAs targets of the influenza virushttp://vita.mbc.nctu.edu.tw
VKCDBVoltage-gated K+ Channel Databasehttp://vkcdb.biology.ualberta.ca/
VNTR Locus DBBacterial Variable Number Tandem Repeat locus databasehttp://vntr.csie.ntu.edu.tw/
WAtDBWageningen Arabidopsis thaliana DatabaseNo longer maintained
wFleaBaseDaphnia Water Flea Genome Databasehttp://wfleabase.org/
Wnt DatabaseWnt proteins and phenotypeshttp://www.stanford.edu/~rnusse/wntwindow.html
WorfDBC. elegans ORFeomehttp://worfdb.dfci.harvard.edu/
WormBaseData repository for C. elegans and C. briggsae: curated genome annotation, genetic and physical maps, pathwayshttp://www.wormbase.org/
WormBookPeer-reviewed chapters on the biology of C. eleganshttp://www.wormbook.org
X:MAPAnnotation and visualization of genome structure for Affymetrix exon array analysishttp://xmap.picr.man.ac.uk
xanthusBaseGenome of the social bacterium Myxococcus xanthushttp://www.xanthusbase.org/
xBaseA family of group-specific bacterial genome databases, includes coliBASE, CampyDB, ClostriDB, MycoDB, PseudoDB and othershttp://xbase.bham.ac.uk/
XenBaseXenopus genomics resourcehttp://www.xenbase.org
XproEukaryotic protein-encoding DNA sequences, both intron-containing and intron-less geneshttp://origin.bic.nus.edu.sg/xpro/
YDPMYeast deletion project and mitochondria databasehttp://www-deletion.stanford.edu/YDPM/YDPM_index.html
Yeast Intron DatabaseAres lab database of splicesomal introns in S. cerevisiaehttp://www.cse.ucsc.edu/research/compbio/yeast_introns.html
Yeast Intron DatabaseAres lab database of splicesomal introns in S. cerevisiaehttp://www.cse.ucsc.edu/research/compbio/yeast_ introns.html
Yeast snoRNA DatabaseYeast small nucleolar RNAshttp://www.bio.umass.edu/biochem/rna-sequence/Yeast_snoRNA_Database/snoRNA_DataBase.html
Yeast snoRNA DBYeast small nucleolar RNAshttp://www.bio.umass.edu/biochem/rna-sequence/ Yeast_snoRNA_Database/snoRNA_DataBase.html
YEASTRACTYeast transcriptional regulationhttp://www.yeastract.com
YEASTRACTYeast search for transcriptional regulators and consensus trackinghttp://www.yeastract.com
YGOBYeast gene order browserhttp://wolfe.gen.tcd.ie/ygob
yMGVYeast microarray global viewerhttp://www.transcriptome.ens.fr/ymgv/
YMPDYeast mitochondrial protein databasehttp://bmerc-www.bu.edu/projects/mito/
YRC PDRYeast resource center public data repositoryhttp://www.yeastrc.org/pdr/
ZFINZebrafish information networkhttp://zfin.org/