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Genomes and sequences

• • COGENT (COmplete GENome Tracking : a flexible data environment for computational genomics) EBI (UK)

  • Complete genomes NCBI (Haemophilius influenza, E. Coli, Mycoplasma genitalium)

  • Completed Genomes at the EBI EBI (UK)

  • Completed microbial genomes InfoBioGen (France)

  • Completed microbial genomes TIGR

  • Completely sequenced genomes Rockfeller (USA)

  • EMGLib (completely sequenced bacterial genomes and the yeast genome) PBIL (France)

  • Fully Sequenced Genomes Present In The Public DataBases GOLD (USA)

  • PEDANT (Protein Extraction, Description, and Analysis Tool) MIPS (more 200 genomes) (Germany)

  • E. Coli : Wisconsin (USA), see also Entrez (NCBI)

  • SACSO (Systematic Analysis of Completely Sequenced Organisms) Pasteur (French)

  • TIGR : Genomes (USA)

  • Yeast Genome Project (Complete genome) MIPS (Germany), see also Genome Viewer, see also Comprehensive Yeast Genome Database

• 　

• • GenQuiz EBI (UK)

  • Proteome analysis @ EBI (UK)

  　

• Animals

  • Anubis (multi-species genome visualisation tool) Roslin (UK)

  • ARK Database Family Roslin (UK)

  • BovBase Roslin (UK)

  • BovMap INRA

  • Cattle, Swine and Sheep Genomes Maps ARS (USA)

  • ChickBASE Roslin, see also USDA-CSREES

  • Chicken Ensembl

  • Chimpanzee Ensembl

  • Cow Genome Project Ensembl

  • The Canine Radiation Hybrid Mapping Project Rennes (French)

  • Dog Ensembl EMBL-EBI-Sanger

  • Dog Genome Project Berkeley

  • Ensembl (genomic sequence with features attached) EMBL-EBI-Sanger

  • Fugu Genome Project IMCB

  • FUGU Project (Fugu rubripes) HGMP (UK)

  • Fugu Ensembl EMBL-EBI-Sanger

  • HorseBase Roslin (UK)

  • Livestock Genome Mapping Programmes (Bovine, chicken, dog, goat, pig, sheep) INRA (France)

  • Pig Gene Mapping NAGRP, see also Roslin (UK)

  • PEDE (database for ESTs derived from porcine full-length cDNA libraries) Ibaraki (Japan)

  • Porcine Genome Physical Mapping Project (Sus scrofa) Sanger (UK)

  • VEGA (Vertebrate Genome Annotation database) Sanger (UK)

• Arabidopsis

  • AAtDB (Harvard) www (USA)

  • A Complete Arabidopsis Transcriptome MicroArray catma

  • Arabidopsis Gene Hunter (searches databases and web sites) TAIR (USA)

  • FLAGdb++ (integration and exploration around the Arabidopsis genome) InfoBioGen (French)

  • Arabidopsis Genomic RNAi Knock-out Line Analysis agrikola

  • Arabidopsis Information Resource (Maps, Databases, Tools,..) TAIR (USA)

  • Genomic Arabidopsis Resource Network GARNET (UK)

  • Arabidopsis data KAOS (Japan)

  • Arabidopsis Sequencing at Stanford (USA)

  • Links to Arabidopsis thaliana WWW sites and to SWISS-PROT entries Expasy

  • AthaMap (resource for in silico transcription factor binding sites in the Arabidopsis thaliana genome) Braunschweig (Germany)

  • Fingerprint Database GSC (USA)

  • Flanking Sequence Tags InfoBioGen (French)

  • GABI-Kat (database of flanking sequence tags (FSTs) of T-DNA mutagenized Arabidopsis thaliana) Koeln (Germany)

  • Genoscope CNS (France)

  • Arabidopsis Beta-glucosidases and galactosidases Iowa (USA)

  • Arabidopsis Cytochromes P450 Biobase (Denmark)

  • Arabidopsis Cytochrome b5 Biobase (Denmark)

  • Arabidopsis Glucosyltransferases Biobase (Denmark)

  • Insertion database CSHL (USA)

  • Arabidopsis P450 Reductase Biobase (Denmark)

  • MATDB (MIPS Arabidopsis thaliana database) MIPS (Germany)

  • Arabidopsis Membrane Protein Library CBS (USA)

  • NASCArrays (a repository for microarray data generated by NASC's transcriptomics service) Nottingham (UK)

  • PAT (Proteins of Arabidopsis Thaliana Database) SDSC (USA)

  • ATIS (Arabidopsis Transposon Insertion Service) JIC (UK)

  • Functional genomics of P450 Illinois (USA)

  • Mutant Genes Oklahoma (USA)

  • Plasma membrane proteins (PPMdb) Ghent (Belgium)

  • Resistance-Gene-Like ESTs TAIR (USA)

  • SIGnAL Arabidopsis Gene Mapping Tool SIGAL (USA)

  • SpliceN EST Max-Planck (Germany)

  • Structural genomics (three-dimensional structure) CESG (USA)

  • ThalEstDB (EST Arabidopsis Thaliana) INRA (France)

  • Transposon Tagging PennState (USA)

  • The TIGR Arabidopsis thaliana Database ATDb (USA)

  • WashU project GSC (USA)

• Bacillus Subtilis

  • ABC transport systems LCB (France)

  • Bacillus Subtilis NIST, see also Pasteur

  • Bacillus Subtilis 168 TIGR (USA)

  • Bacillus subtilis Genetics at the Royal Holloway London (UK)

  • DBTBS (promoters and transcription factors database) Tokyo (Japan), another link

  • MadBase (and BadBase an ACeDB version) INRA (France), see also Micado Main Menu

  • A Non-Redundant Database for Bacillus subtilis NRSub (Lyon)

  • Bacillus Subtilis : neighbouring genes and codon usage Versailles (France)

  • Links to B. subtilis WWW sites and to SWISS-PROT entries Expasy

  • Micado (prokaryotes and Bacillus subtilis) INRA (French)

  • PEDANT MIPS (Germany)

  • SPiD (Protein interaction Database) INRA (French)

  • Sporulation genes London (UK)

  • SubtiList Pasteur (French)

  • SRS : at HGMP (England)

• C. elegans

  • AppaDB (an AcedB database for the nematode satellite organism Pristionchus pacificus) Tuebingen (Germany)

  • Cold Spring Harbor CSHL (USA)

  • GSC (USA)

  • The Sanger Centre www

  • UTSW C. elegans server www (Texas)

  • C. elegans EST NIG (Japan), see also GSC (USA)

  • C. elegans Mitochondrial genetics Sanger (UK)

  • Labial Homeobox Swiss Worm (Switzerland)

  • Links to C. elegans WWW sites and to SWISS-PROT entries Expasy

  • Nematode.net (a tool for navigating sequences from parasitic and free-living nematodes) Washington (USA)

  • NEMBASE (a resource for parasitic nematode ESTs) Edinburgh (UK)

  • RNAi in C. elegans New York (USA)

  • RNAi at @elegans (USA)

  • WashU project GSC (USA), see also Briggsae

  • WormBase Sanger (UK)

  • Human and Nematode Orthologs NCBI (USA)

  • Worm-Yeast Protein Comparison Stanford (USA)

• Crayfish

  • Brigham (USA)

• Dictyostelium

  • cDNA Project Tsukuba (Japan)

  • DictyDB (Dictyostelium discoideum) San Diego (USA)

  • DictyDB (Dictyostelium discoideum) UCSD (USA)

  • dictyBase

  • Dictyostelium Project BCM (USA)

  • Dictyostelium Project Jena (Germany)

• Drosophila

  • Atlas of the Drosophila nervous system www (Freiburg)

  • DRES (Drosophila Related Expressed Sequences) TigemNet (Italy)

  • Berkeley Drosophila Genome Project BDGP (USA)

  • Ensembl (genomic sequence with features attached) Sanger-EBI

  • Entrez genome NCBI (USA)

  • European Drosophila Genome Project (EDGP) EBI (UK)

  • FlyBase (Indiana) www, see also Search (Harvard), see also ANGIS

  • FlyBase (mirror at EBI) EBI (UK)

  • FlyBase (mirror at Strasbourg) IBMC (France)

  • FlyBrain USA, see also Germany

  • FlyEx (database on gene expression in segmentation genetic network) New York (USA), another link St Petersburg (Russia)

  • FlyMine (integrated database for Drosophila and Anopheles genomics) Cambridge (UK)

  • FlyTrap (relational database of transposable element insertions) California (USA)

  • FlyNets (Annotated Database for Molecular Interactions) GIFTS (France)

  • FlyView (Muenster) www (image database on Drosophila development)

  • Index of Drosophila entries and their corresponding FlyBase cross-references Expasy

  • LBL Human Genome Center www

  • The Gene Interactions in the Fly Trans-World Server GIFTS (France)

  • The Interactive Fly (A cyberspace guide to Drosophila genes and their roles in development) SDB (USA)

  • MitoDrome (nuclear genes encoding proteins targeted to the mitochondrion) Bari (Italy)

  • The Drosophila P450 Site INRA (French)

  • SegNet (Segmentation Gene Networks) Russian Network

  • SOS-DGDB (DNA sequences annotated with regulatory protein binding sites) GIFST (France)

  • SpliceN EST Max-Planck (Germany)

  • Wnt genes in Drosophila Stanford (USA)

  • SRS - FlyClones - FlyGene - FlyRef - Flypeople InfoBioGen (French), see also HGMP (UK)

• Fungi

  • CADRE (the Central Aspergillus Data REpository) Manchester (UK)

  • FGSC (Fungal Genetics Stock Center) Kansas (USA)

  • Fungal Cosmid and cDNA Sequencing Oklahoma (USA)

  • Fusarium sporotrichioides Oklahoma (USA)

  • Index of Mycoplasma genitalium strain G-37 chromosomal entries Expasy

  • Magnaporthe grisea NCSU (USA)

  • Mycoplasma genitalium : PEDANT MIPS (Germany)

  • Mycoplasma genitalium : Structural Assignments to MG Proteins Yale (USA)

  • Mycoplasma pneumoniae (Sequences, Metabolic Pathways) Heidelberg (Germany), see also Expasy

  • Mycoplasma pneumoniae : PEDANT MIPS (Germany)

  • Mycoplasma pulmonis (MypuList) Pasteur (French)

  • Mycor Web (E. globulus - P. tinctorius) INRA (France)

  • Neurospora genome project New Mexico (USA), see also MIPS (Germany)

  • Search CBS Filamentous Fungi database CBS (Denmark)

• Human

  • AceView (genes. clones, ESTs) NCBI (USA)

  • Alternative Splicing (AS) Berlin (Germany)

  • Alternative Splicing Database (ASD) EBI (UK)

  • Alternative Splicing Gallery - ASG (bridging the gap between genome and transcriptome) North Carolina (USA)

  • AluGene (database of Alu elements incorporated within protein-coding genes) Tel Aviv (Israel)

  • Ensembl

  • GDB et OMIM ANGIS (Australia)

  • GDB and OMIM GenomeNet (Japan) www (DBGET)

  • GDB and OMIM Heidelberg (Germany)

  • GDB et OMIM (John Hopkins) www (Search by Keyword, Name, Gene name, Map location ...), mirror list

  • GDB and OMIM WEHI (Australia)

  • GDB and OMIM Weizman (Israel)

  • GENATLAS (genes, diseases, and markers) Paris (France)

  • Genew (the Human Gene Nomenclature Database) London (UK)

  • GENOTK (a human cDNA database) Otsuka (Japan)

  • HASDB (Human Alternative Splicing Database) UCLA (USA)

  • HGBASE (Human Genic Bi-Allelic SEquences) Interactiva (Germany)

  • HIB : database of annotated UniGene clusters MIPS (Germany)

  • HOWDY (integrated database) Tokyo (Japan)

  • HPRD (human protein reference database as a discovery resource for proteomics) HPRD

  • HUGE (Human Unidentified Gene-Encoded Large Proteins) Kazusa (Japan)

  • HugeIndex ZLab (USA)

  • International Protein Index (IPI : human, mouse proteomes) EMBL-EBI (UK)

  • LocusLink (NCBI RefSeq : a non-redundant set of reference sequences, including constructed genomic contigs, mRNAs, proteins) NCBI (USA)

  • MITOMAP (mitochondrial genome database) Emory (USA)

  • OMIM NCBI (USA), search, see also Entrez

  • STACK (Sequence Tag Alignment and Consensus Knowledgebase) SANBI (South Africa)

  • STRBase (Short Tandem Repeat DNA) NIST (USA)

  • TIGR Expressed Gene Anatomy Database EGAD (USA)

  • TIGR Human Gene Index HGI (USA)

  • UDB (Unified Database for Human Genome Mapping) Weizman (Israel)

  • Unique Human Gene Sequence Collection (Search and list by chromosome) UniGene (NCBI : USA), see also : alignment ProtEST

  • CEPH (Genethon) www (Physical Map, YAC), see also

  • CHLC (Cooperative Human Linkage Center) NCI (USA)

  • Center for Medical Genetics (genetics maps, markers, CEPH..) CMG (USA)

  • Fingerprint database GSC (USA)

  • GenLink (GenotypesDB, TelDB, Meiotic Maps) WU (USA)

  • A Gene Map of the Human Genome (Transcript map : Science 96) NCBI (USA)

  • Gene Map NCBI (USA)

  • Genome Browser UCSC, another link (USA)

  • Genome Map 98 EBI, Map 99 (UK)

  • Genome map viewer NCBI (USA), see also Tour Human

  • GeneNest Index (EST Clustering Projects) Max-Planck (Germany)

  • Genome Project BAC and Accession Maps GSC (USA)

  • HuGeMap database InfoBioGen (France)

  • Human BAC Mapping Data MIT (USA)

  • Human Gene Nomenclature Database Search UCL (UK)

  • Human Genome Guide NCBI (USA)

  • Human Genome Project (Chromosome, RHT, EST, Polymorphism) Sanger (UK), see also humace

  • Human Genome Sequencing NCBI (USA)

  • HUNT (Human Novel Transcripts) HRI (Japan)

  • BCMGC (Houston) www

  • HPID (Human protein interaction database) Daejeon (Korea)

  • LBL Human Genome Center www (USA)

  • LDB2000 (Sequence-based Integrated Maps of the Human Genome) Southampton, see also LDB (UK)

  • SHGC center (Mapping, Sequencing, RH server) Stanford (USA)

  • Human Genome Project Working Draft UCSC (USA)

  • SRS - OMIM (linked libraries : OMIM) : all the [SRS] servers, except ABC, BEN, DISC, EBI, IUBio, SEQNET, Weizman

  • SRS - CPGISLE (linked libraries : CPGISLE Human CpG-island database) : all the [SRS] servers, except ABC, Biozentrum, DISC, EMBL, IUBio, WEHI, Weizman

  • SRS - MIMMAP (linked or genomic libraries : MIMMAP) : all the [SRS] servers, except ABC, Ben, DISC, EMBL, IUBio, SEQNET, WEHI, Weizman

  • SRS - HUMREP : CMBI (Nijmegen)

  • SRS - RHXX (mapping libraries : RHDB, RHEXP, RHPANEL) : at EMBL-EBI, Sanger Centre (England), InfoBioGen (France), WEHI (Australia)

  • SRS - UNIGENE : at InfoBioGen (France), Sanger Centre (England), WEHI (Australia), MIPS (Germany)

  • SRS - VIRGIL : at InfoBioGen (France), WEHI (Australia)

  • Chromosomes

    • Chromosome Launchpad ORNL (USA)

    • Chromosomes 1-22, X, Y UniGene (NCBI : USA), see also UDB (Weizmann), see also Annotation Database, see also HUGO

    • Chromosomes 1, 6, 9, 10, 13, 20, 22, X Sanger (UK)

    • Chromosomes 1, 2, 3, 4, 5, 7, 8, 12, 13, 14, 16, 22, X, UL GSC (USA)

    • Chromosomes 1, 9, 11, 22 Oklahoma (USA)

    • Chromosomes 5, 16, 19 JGI (USA)

    • Chromosome 1 Rockefeller (USA), see also Protein sequence entries in SwissProt Expasy

    • Chromosome 2 : Protein sequence entries in SwissProt Expasy

    • Chromosome 3 UTHSCSA, see also Baylor (USA), see also Protein sequence entries in SwissProt Expasy

    • Chromosome 4 Stanford (YAC STS-content map), see also Protein sequence entries in SwissProt Expasy

    • Chromosome 5 : Protein sequence entries in SwissProt Expasy

    • Chromosome 6 Sanger (UK), see also Protein sequence entries in SwissProt Expasy, see also MHC Haplotype Project Sanger

    • Chromosome 7 NHGRI (USA), see also Toronto (Canada), see also ACEDB GSC, see also Protein sequence entries in SwissProt Expasy

    • Chromosome 8 UTHSCSA, see also Protein sequence entries in SwissProt Expasy

    • Chromosome 9 Cambridge see also report on 3rd International Chromosome 9 Workshop, see also Protein sequence entries in SwissProt Expasy

    • Chromosome 10 Protein sequence entries in SwissProt Expasy

    • Chromosome 11 Protein sequence entries in SwissProt Expasy

    • Chromosome 12 EGC, see also Baylor, see also Protein sequence entries in SwissProt Expasy

    • Chromosome 13 Protein sequence entries in SwissProt Expasy

    • Chromosome 14 Genoscope, see also Protein sequence entries in SwissProt Expasy

    • Chromosome 15 Protein sequence entries in SwissProt Expasy

    • Chromosome 16 LANL(Los Alamos), see also TIGR (USA), see also Protein sequence entries in SwissProt Expasy

    • Chromosome 17 Weizmann (Israeli), see also Protein sequence entries in SwissProt Expasy

    • Chromosome 18 Boston (USA),see also Protein sequence entries in SwissProt Expasy

    • Chromosome 19 LLNL see also DNA Repair (California), Protein sequence entries in SwissProt Expasy

    • Chromosome 20 Sanger (UK), see also Protein sequence entries in SwissProt and OMIM Expasy

    • Chromosome 21 CSMC (Los Angeles), see also Max-Planck, see also CEPH (France), see also Tokyo, see also ERI (USA), see also Weizmann, see also Protein sequence entries in SwissProt Expasy

    • Chromosome 22 Sanger centre (UK), see also GAIA 22, see also Protein sequence entries in SwissProt Expasy, see also GALA (Genome Alignment and Annotation Database) Pennsylvania

    • Chromosome X Max Planck (Deuchtland), see also Washington, see also Baylor, see also Protein sequence entries in SwissProt Expasy

    • Chromosome X : IXDB (integrated database) Berlin (Germany), see also MPI

    • Chromosome Y : Protein sequence entries in SwissProt Expasy

    • Human-Mouse Homology chromosome regions and genes Softberry (USA)

    • Analysis of triplet repeats CCMB (India)

    • Acquired Chromosome Abnormality Database HGMP (UK)

    • Chromosomal breakpoints in human cancer NCBI (USA)

    • MITOMAP: A database of the "Report of the committee on human mitochondrial DNA" Emory (Georgia)

    • Cytogenetics Gallery Washington (USA)

  • ADB (Albinism database) CBC (USA)

  • ALFRED (Allele Frequency Database) Yale (USA)

  • ALPSbase (Autoimmune Lymphoproliferative Syndrome) NHGRI (USA)

  • APDD (the Archaeal Pathogen Detection Database) Sydney (Australia)

  • ARED (AU rich element containing mRNA database) Riyadh (Saudi Arabia)

  • Atlas of Genetics and Cytogenetics in Oncology and Haematology Villejuif (French)

  • BodyMap (Anatomical Expression Database of Human Genes) IMCB (Japan)

  • BreastDB - Breast cancer drug resistance screen Database NCI (USA)

  • The Cancer Genome Anatomy Project (CGAP) NCBI (USA)

  • Clone Set NHGRI (USA)

  • Connexin-deafness IRO (Spain)

  • COSMIC (somatic mutations in cancer) Sanger (UK)

  • DHMHD - The Dysmorphic Human-Mouse Homology Database HGMP-RC (UK), see also Human syndromes

  • Entrez : Cancer Chromosomes NCBI (USA)

  • G2D (candidate genes for mapped inherited human diseases) EMBL (Germany)

  • GeneCards (functions of genes and their products) Weizmann, see also Heidelberg, see also IcNet, see also CMBI (Netherlands)

  • GENDIAG (Genetic Syndromes and Abnormalities in Development in Man) InfoBioGen (French)

  • GeneDis (Human Genetic Disease Database) Tel Aviv (Israel)

  • Genes and Diseases NCBI (USA), see also DNA Sciences

  • Genetic Disorders by Chromosome GDB (USA)

  • GeneTrap (modeling human disease gene trap resource) Toronto (Canada)

  • HapMap (expected to be a key resource for researchers to use to find genes affecting health, disease, and responses to drugs and environmental factors) IHMP

  • Hembase (human erythroid transcriptome database) Rockville Pike (USA)

  • Hera (human endoplasmic reticulum resident proteins database) Montreal (Canada)

  • HERVd (human endogenous retroviruses) Prague (Czech Republic)

  • HIV1 - Human protein interaction database NIAID (USA)

  • Human Epigenome Project (aims to identify and catalogue Methylation Variable Positions (MVPs)) Sanger (UK)

  • Human EST Project WashU-Merck (USA), see also WashU-NCI CGAP EST Project

  • Human Genome Variation Database (HGVBASE) CGR (Sweden)

  • Human Hexosaminidase A mutation db (Tay-sachs disease) MCH (Canada)

  • Human Short Insertion Deletion Polymorphisms CMG (USA)

  • Human and Mouse Transcribed Sequences (DOTS) CBIL (USA)

  • Human Full Length cDNA Database KDRI (Japan)

  • Human leukemia cell lines proteome Paris13 (French)

  • Human Plasma Membrane Receptome (HPMR) Stanford (USA)

  • Human proteins with sequence variants Expasy

  • Human STS vs YAC Screening Database MIT (USA)

  • Human Radiation Hybrid (RHdb) EBI

  • Human Radiation Hybrid Mapping Sanger, see also GB4-RH, see also G3-RH

  • Human Repetitive Elements NCBI (USA)

  • SKY and CGH Database (Spectral Karyotyping (SKY) and Comparative Genomic Hybidization (CGH)) NCBI (USA)

  • Glovar (genomic variation database) Sanger (UK)

  • Human SNP (database of single nucleotide polymorphisms) NCBI, see also MIT, see also UW-FHCRC

  • Leelab SNP Database UCLA (USA)

  • Human PicSNP (Non-Synonymous SNP) UMIN (Japan)

  • SNP allele frequencies Chicago (USA)

  • SNPs in the Context of Transcripts, ORFs and Protein Motifs (Gene Viewer) NCI (USA)

  • topoSNP (a topographic database of non-synonymous single nucleotide polymorphisms with and without known disease association) Illinois (USA)

  • SNP500Cancer (a public resource for sequence validation and assay development for genetic variation in candidate genes) NCI (USA)

  • Human Transcript Database Baylor (USA)

  • EGAD - The Expressed Gene Anatomy Database TIGR (USA)

  • EICO (finding disease-related imprinted genes) Riken (Japan)

  • EMD - Human Emerin mutation db (Emery-Dreifuss muscular dystrophy) Cambridge (UK)

  • HbVar (Human Hemoglobin Variants and Thalassemias) Pennsylvania (USA)

  • LDB - The genetic Location Database Southampton (UK)

  • LOH (loss of heterozygosity maps from over 800 cancer cell lines and normal samples) Sanger (UK)

  • The Human Gene Mutation Database Cardiff (PMDB : Point Mutation DB, MDDB : Micro-Deletion DB)

  • IL2RGbase (Database of Mutations Causing Human X-Linked SCID) NHGRI-NIH (USA)

  • Immunodeficiency Mutation Databases Helsinki (Finland)

  • Lowe Syndrome Mutation Database (OCRL1 gene) NHGRI (USA)

  • MHC database (DNA and clinical data) NCBI (USA)

  • Mutation registry for X-linked agammaglobulinemia BTKbase (Finland), see also Tampere

  • NCL mutations (Neuronal Ceroid Lipofuscinoses) UCL (UK)

  • Neuropathology Atlas HNM (Hungary)

  • Somatic p53 mutations in human tumors and cell lines IARC (France)

  • SpliceN EST Max-Planck (Germany)

  • EASED (Extended Alternatively Spliced EST Database) Berlin (

  • UMD (Universal mutation database : APC, FBN1, LDLR, MEN1, p53, SUR1, VHL, WT1) Necker (French)

  • VMD2 Mutation Database Wurzburg (Germany)

  • WRN mutation db (Werner disease) Washington (USA)

  • WT1-Mutation Database Necker (France)

  • X-ALD gene mutation database Amsterdam (Netherlands)

  • The Whole Brain Atlas Harvard (clinical information with magnetic resonance (MR), x-ray computed tomography)

  • Homophila (human disease to drosophila genes) SDSC (USA)

  • Human cDNA clones homologous to Drosophila mutant genes TIGEM (Italy)

  • Godzilla (Compare the Human and Mouse Genomes) Berkeley (USA)

  • Human/Mouse Homology Relationships NCBI (USA)

  • SLAM (submit pairs of syntenic sequences for gene annotation and alignment) Berkeley (USA)

  • Whole Genome Human/Mouse Homology Penn State (USA)

  • Human and Nematode Orthologs NCBI (USA)

• Insect

  • Fulgoromorpha Jussieu (French)

  • Honeybee Ensembl

• Mosquitos

  • AaeDB (Colorado) www

  • AnoDB (Anopheles Database) IMBB (Greak)

  • Anopheles gambiae genome NCBI (USA)

  • Mosquito Genomics W3 server Colorado (USA)

  • Ensembl

• Mouse

  • Anatomical Dictionary Browser Jackson Lab (USA)

  • Atlas Project (Genex) MRC (UK)

  • Atlases of Rodent Tumour Pathology PathIT (USA)

  • Bay Area Resource of Mouse Mutations in Secreted and Membrane Proteins Berkeley (USA)

  • BodyMap (Anatomical Expression Database of Mouse Genes) IMCB (Japan)

  • Chromosomes

    • Chromosome 11 BCM (USA)

  • Cytogenetic Map Image NIAI (Japan)

  • EICO (finding disease-related imprinted genes) Riken (Japan)

  • EST (WashU Project) GSC (USA)

  • FANTOM (functional annotation of mouse) Riken (Japan)

  • FREP Database (Functional Repeats in Mouse cDNAs) Riken (Japan)

  • GeneNest Index (EST Clustering Projects) Max-Planck (Germany)

  • GenePaint (an atlas of gene expression patterns in the mouse embryo) Max Planck Institute (Germany)

  • Genetic Map (MIT) www, another link, see also GPMMG

  • GeneTrap (modeling human disease gene trap resource) Toronto (Canada)

  • International Protein Index (IPI : human, mouse proteomes) EMBL-EBI (UK)

  • Portable Dictionary of the Mouse Genome (University of Tenessee) Nevernet

  • Ensembl (genomic sequence with features attached) Sanger-EBI

  • The European Collaborative Interspecific Mouse Backcross EUCIB (HGMP : UK, Pasteur : France)

  • Genome - MGD (Jackson Laboratory) www, see also CMBI (Netherlands), see also Wehi (Australia)

  • MGD entries in Swiss-Prot Expasy (Switzerland)

  • MICER (Mutagenic Insertion and Chromosome Engineering Resource) Sanger (UK)

  • Mitochondrial and Other Useful SEquences Munich (Germany)

  • Mouse RH Map MIT (USA)

  • Pathbase (European database of mutant mouse pathology) EMMPD

  • Rat Brain Atlas Project GWER (Switzerland)

  • Rat EST Project Iowa (USA)

  • Rat Genome Database (RGD) MCW (USA)

  • Rat Genome Resources NCBI (USA)

  • Rat Map WWW Server Goteborg

  • Rattus norvegicus genome view NCBI (USA)

  • READ (Riken Expression Array Database) Riken (Japan)

  • RTCGD (mouse retroviral tagged cancer gene database) NCIFCRF (USA)

  • SAGE (public libraries generated by the Serial Analysis of Gene Expression) Prague (Czech Republic)

  • StemCellDatabase (SCDb) Princeton (USA)

  • SIGTR (Sanger Institute Gene Trap Resource) Sanger (UK)

  • SNPs in the Context of Transcripts, ORFs and Protein Motifs (Gene Viewer) NCI (USA)

  • SpliceN EST Max-Planck (Germany)

  • TIGR Mouse Gene Index MGI (USA)

  • Unique Mouse Sequence Collection UniGene (NCBI : USA), see also rat

  • Base des transgeniques (TBASE) Jackson Lab (USA)

  • Cytogenetic Correspondence in the Linkage Map (Huamn, Pig, Cattle, Sheep, Rat) NIAI (Japan)

  • DHMHD - The Dysmorphic Human-Mouse Homology Database HGMP-RC (UK)

  • The Gene Expression Database (GXD) Jackson, search form (USA)

  • Mouse Tumour Biology Data Base (MTD) Jackson (USA)

  • Gene Knockouts Database www (mouse phenotypes rendered by the knockout of various molecules) (USA)

  • Godzilla (Compare the Human and Mouse Genomes) Berkeley (USA)

  • Human and Mouse Transcribed Sequences (DOTS) CBIL (USA)

  • Human/Mouse Homology Relationships NCBI (USA)

  • SLAM (submit pairs of syntenic sequences for gene annotation and alignment) Berkeley (USA)

  • Whole Genome Human/Mouse Homology Penn State (USA)

  • Mutant Mouse Database ORNL (USA)

  • SKY and CGH Database (Spectral Karyotyping (SKY) and Comparative Genomic Hybidization (CGH)) NCBI (USA)

  • ARB Rat Genetic Database (Arthritis and Musculoskeletal and Skin Diseases) NIH (USA)

• Parasites

  • CryptoDB (the Cryptosporidium genome resource) Georgia (USA)

  • Filarial Genome Network SCDM (USA), mirror at ED (UK)

  • Kinetoplast Minicircle Sequence Database EBI (UK)

  • Leishmania Genome Network EBI (UK), voir aussi EST (WashU project) GSC (USA)

  • Malaria Database Melbourne (Australia)

  • Malaria Genetics Section NCBI (USA)

  • Malarial Genome Project Sanger (UK), see also Stanford (USA)

  • Full-Malaria (an enlarged database for comparative studies of full-length cDNAs of malaria parasites, Plasmodium species) Tokyo (Japan)

  • Malaria Metabolic Pathway Jerusalem (Israel)

  • Parasite-genome (Sequences, Codon Usage, ESTs) EBI (UK), see also Internet Resources and Contacts, see also UCLA (USA)

  • Parasite Databases of Clustered ESTs CBIL (USA), see also ApiESTDB

  • Parasite-genome EBI (UK)

  • Parasites proteome analysis EBI (UK)

  • Plasmodium falciparum Florida (USA)

  • Plasmodium falciparum (PlasmoDB) UPENN (USA)

  • Toxoplasma Database of Clustered ESTs CBIL (USA), see also EST (WashU project) GSC

  • Toxoplasma gondii ToxoDB

  • Trypanosoma brucei Cambridge (UK)

  • Trypanosoma cruzi Pasteur (French), see also Uppsala (Sweden), see also TcruziDB Georgia (USA)

• Plants

  • AceDB CropNet (UK)

  • Angiosperm DNA C-Values Database RBG (UK)

  • Antirrhinum majus Koln (Germany)

  • BeanGenes Database (USA)

  • BeanRef CNR (Italy)

  • Brassica UK CropNet (UK)

  • Cotton DB USDA

  • Dendrome (Forest tree database) California (USA)

  • Erwinia carotovora (plant pathogen) Sanger (UK)

  • GrainGenes (Small grains and Sugarcane) INRA (France)

  • MaizeDB www (Missouri)

  • MaizeGDB (the community database for maize genetics and genomics) Iowa (USA)

  • Maize Gene Discovery, DNA Sequencing and Phenotypic Analysis Stanford (USA)

  • Maize Mapping Project Missouri (USA)

  • c-Map (comparative mapping maize-rice) Missouri (USA)

  • Mendel Database (photosynthetic organisms, organelle genomes and plant viruses) Stanford (USA)

  • ncRNAs (noncoding RNAs in plants) Michigan (USA)

  • PhytoProt (a database of clusters of plant proteins) Genoplante (French)

  • PLACE (cis-acting regulatory DNA elements db) DISC (Japan)

  • PlantCARE (cis-acting regulatory element database) Gent (Belgium)

  • PlantGDB (plant genome database and analysis tools) Iowa (USA)

  • Plant Genomes Databases Cornell

  • PlantProm DB (promoter sequences) London (UK)

  • Plant Repeat Databases TIGR (USA)

  • PlantSat (Plant satellite DNA) IPMB (Czech Republic)

  • Plant snoRNA Database (small nucleolar RNAs) SCRI (UK)

  • PLMItRNA/SRS (mitochondrial tRNAs and tRNA genes) Bari (Italy)

  • BGI-RIS (an integrated information resource and comparative analysis workbench for rice genomics) Beijing (China)

  • Rice Genome Research AFFRC (Japan)

  • Rice Genome Sequencing USIRGS (USA)

  • Rice Knowledge Bank IRRI (USA)

  • Rice Pipeline (a unification tool for plant functional genomics) Ibaraki (Japan)

  • Rice Proteome Database based on two-dimensional polyacrylamide gel electrophoresis Tokyo (Japan)

  • Rice-research Monsanto (USA)

  • Solanaceae Genomics Project Cornell (USA)

  • Sorghum bicolor Texas (USA)

  • TIGR Rice Gene Index OGI (USA), see also Rice genome

  • SoyBase Iowa, see also Cornell

  • SGMB (Soybean genomics and microarray database) USDA-ARS (USA)

  • Search of EST Analysis Files CBC (Minnesota) database server for similarity analysis results for cDNA/EST sequences.

  • TropGENE (database of tropical crops) Cirad (French)

  • ZmDB (Maize Genome database) NSF (USA)

• Prokaryotes

  • BIBI (Bio informatic bacterial identification) PBIL (French)

  • EnteriX (Visualization Tools for Bacterial Genome Alignments) Pensylvania

  • FusionDB (database for in-depth analysis of prokaryotic gene fusion events) IGS (French)

  • GeConT (gene context analysis) Morelos (Mexico)

  • Islander (Prophages Incorporated into Bacterial Genomes) Indiana (USA)

  • IslandPath (aiding detection of genomic islands in prokaryotes) Burnaby (Canada)

  • MICdb (Prokaryotic Microsatellites Database) Hyderabad (India)

  • ORF and sequences retriever U-ParisSud (French)

  • ORFan database Beer-Sheva (Israel)

  • Phydbac (display phylogenomic profiles of bacterial protein sequences) IGS (French)

  • PRODORIC (prokaryotic database of gene regulation) Braunschweig (Germany)

  • Bacterial Nomenclature up-to-date DSMZ (Germany)

  • Bacterial Polysaccharide Gene Database Sydney (Australia)

  • Bacterial Quorum Sensing Nottingham (UK)

  • Completed and Uncompleted Microbial Genomes at InfoBioGen (France)

  • Micado (prokaryotes and Bacillus subtilis) INRA (French)

  • Microbial Genome Database for Comparative Analysis MBGD (Japan)

  • Microbial Genomes at Sanger (UK)

  • Microbial Genomes at JGI (USA)

  • Microbial Genome Viewer Nijmegen (The Netherlands)

  • Multi Locus Sequence Typing MLST

  • Genomic Threading (Haemophilus influenzae, Mycoplasma genitalium and Methanococcus jannaschii) Warwick (UK)

  • Homologous Bacterial Genes Database PBIL (France)

  • PGTdb (Prokaryotic Growth Temperature Database) DLS (Taiwan)

  • SEEBUGS Microbial Genome Analysis (Concordance, Subtraction, Cluster, Neighbors) Rutgers (USA)

  • Archaeoglobus fulgidus TIGR (USA)

  • Bacterial Genome (Salmonella typhimurium, Salmonella paratyphi, AKlebsiella pneumoniae) GSC (USA)

  • Bacteroides Carolina (USA)

  • Borrelia burgdorferi (Strain list and Genetic and Physical maps) Pasteur, see also TIGR (USA)

  • Bordetella (parapertussis, bronchiseptica, pertussis) Sanger (UK)

  • Buchnera iBGD (Japon), see also Expasy

  • CMR Genomes (Comprehensive microbial resource) TIGR (USA)

  • Chlamydia GP Berkeley (USA), see also TIGR

  • Chlamydia Sequencing at Stanford (USA)

  • Corynebacterium efficiens NITE (Japan)

  • Berkeley E. coli Microarray Entry Point Berkeley (USA)

  • CCDB (a comprehensive, self-updating, relational database to coordinate and facilitate in silico modeling of Escherichia coli) Alberta (Canada)

  • Coli Base Birmingham (UK)

  • Colibri World-Wide Web Server Pasteur (French)

  • EcoCyc (Encyclopedia of E. coli Genes and Metabolism) Pangea (USA)

  • EcoGene Miami (USA)

  • Escherichia Coli : PEDANT MIPS (Germany)

  • Escherichia Coli : RegulonDB (transcriptional regulation) Mexico

  • E. Coli : neighbouring genes and codon usage Versailles (France)

  • Escherichia Coli (Yale) www (stock)

  • E.coli database collection (ECDC) Giessen (Germany)

  • DNA-Proteins interactions db (DPInteract) Harvard (USA)

  • E. coli DNA-Binding Site Matrices Harvard (USA)

  • E.coli in-frame gene deletion Harvard (USA)

  • GenProtEC (Genome and proteome database) MBL (USA)

  • Functional Categories of Escherichia Coli WIT (USA)

  • HAMAP (High quality Automated Microbial Annotation of Proteomes) Expasy (Switzerland), see also : list of organisms which are currently target of the HAMAP

  • Index of Escherichia coli Gene-protein database (ECO2DBASE) entries referenced in SWISS-PROT Expasy

  • Links to E.coli WWW sites and to SWISS-PROT entries Expasy

  • IS db (insertion sequences isolated from eubacteria and archae) IBCG-LMGM (France)

  • Promec (E. coli mRNA promoters with experimentally identified transcriptional start sites) Jerusalem (Israel)

  • SRS - ECD (linked libraries : ECD) : at BMC (Sweden), EMBNet, HGMP (England), InfoBioGen (France)

  • SRS - ECDC (linked libraries : ECDC) : all the [SRS] servers, except ABC, CMBI, IUBio, Weizman

  • SRS - ECDCONTIG (linked libraries : ECDCONTIG) : at Sanger Centre (England)

  • SRS - ECOCYCXXX (metabolism libraries COLI, PROT, ENZ, PATH, GENE, COMP) : at Sanger Centre (England)

  • CyanoBase KDRI (Japan)

  • CyanoSite Purdue (USA)

  • Erwinia carotovora (plant pathogen) Sanger (UK)

  • Extremophiles Paris (French)

  • Haemophilus influenzae

    • Influenza Bibliography NIMRC (UK)

    • GeneQuiz: automated analysis of Haemophilus influenzae proteins EBI

    • Influenza Sequence Database LANL (USA)

    • Index of Haemophilus influenzae RD chromosomal entries and gene names with links to the TIGR and EMBL servers Expasy

    • Haemophilus influenzae database collection (HIDC) Giessen (Germany)

    • The Haemophilus influenzae Rd Genome Database TIGR (USA)

    • PEDANT MIPS (Germany)

  • Helicobacter pylori strain 26695 chromosomal entries Expasy

  • Helicobacter pylori Genome Database (HPDB) TIGR (USA), see also tRNA Database Washington (USA), see also Boston (USA)

  • Helicobacter PyloriGene World-Wide Web Server Pasteur (French)

  • Leptospira (Strain list and Genetic and Physical maps) Pasteur

  • ListiList (Listeria Web server) Pasteur

  • Methanobacterium thermoautotrophicum Database Ohio (USA)

  • Index of Methanococcus jannaschii entries Expasy

  • Methanococcus jannaschii Genome Database (TIGR) MJDB

  • Methanococcus jannaschii : PEDANT MIPS (Germany)

  • Mycobacteries Stockholm (MycDB), see also Pasteur (MycDB), see also Sanger

  • Mycobacterium leprae World-Wide Web Server Pasteur (French)

  • Mycobacterium tuberculosis H37Rv Pasteur (French)

  • Mycobacterium tuberculosis diversity knowledgebase AmpliBASE MT

  • M. tuberculosis secreted proteins Stanford (USA)

  • MolliGen (database dedicated to the comparative genomics of Mollicutes) Bordeaux (France)

  • Mycoplasma genitalium Genome Database (TIGR) MGDB (USA)

  • Neisseria gonorrhoeae Oklahoma (USA)

  • Pseudomonas aeruginosa PGC (USA)

  • Pseudomonas aeruginosa 2Cdb LCB (French)

  • PseuRECA (reannotation and context analysis of the Pseudomonas aeruginosa PA01 genome) EBI (UK)

  • Pyrococcus abyssi Genoscope (French), see also U-ParisSud

  • Pyrococcus horikoshii OT3 database NITE (Japan)

  • Rhizobium : Protein sequence entries in SwissProt Expasy

  • Rhizobium meliloti (Sinorhizobium meliloti) INRA (French)

  • Rhodobacter sphaeroides Texas (USA)

  • Rickettsia prowazekii GIB (Japan), see also TIGR, see also Protein sequence entries in SwissProt Expasy

  • Salmonella typhimurium LT2 chromosomal entries and their corresponding StyGene cross-references Expasy

  • Sinorhizobium meliloti INRA-Toulouse (French)

  • Staphylococcus aureus NITE (Japan), see also Secretory Proteins Argonne (USA)

  • Streptococcus pyogenes Oklahoma (USA)

  • Streptomyces coelicolor (ScoDB) JIC, another link (UK)

  • Sulfolobus solfataricus : PEDANT MIPS (Germany)

  • Sulfolobus tokodaii NITE (Japan)

  • Synechocystis MIPS (Germany), see also GIB (Japan), see also Index of Synechocystis strain PCC 6803 entries Expasy

  • Thermoplasma acidophilum Max-Planck (Germany)

  • Thermotoga maritima GD TIGR (USA)

  • Xylella fastidiosa Genome Project Sao Paulo (Brasil)

  • Yersinia pestis Sanger (UK)

• • Viruses

    • Genotyping resource for viral sequences NCBI (USA)

    • HerpesVirus Database UDEL (USA)

    • HERV (Human endogenous retroviruses database) IMG (Czech Republic)

    • Anti-HIV compounds Database

  • HIV Database (Los Alamos) www (AB, CTL, Epitopes and Molecular Immunology)

  • HIV Drug Resistance Database LANL (USA)

  • HIV1 - Human protein interaction database NIAID (USA)

  • HIV Molecular Immunology LANL (USA)

  • HIV Protease Database NCI (USA)

  • HIV RT and Protease Sequence Database Stanford (USA)

  • HIV Sequence Database LANL (USA)

  • SRS - AIDSN AIDSP : at BEN (Brussels), InfoBioGen (France), WEHI (Australia)

  • HPV Database (Los Alamos) www

  • ICTVdB (A Universal Virus Database) ANU (USA), see also Index Virum

  • IMV (Wisconsin) www (Classification, Sequences, Alignments, and Phylogenetic Trees of Geminiviridae, Picornaviridae, Potyviridae and Plant Viruses)

  • Picornavirus (Seq., 3D struct., Align., Pfam) IAH (England)

  • Plant Virus on line ANU (Australie), mirror at Idaho (USA)

  • Retroviruses ressources NCBI (USA)

  • SARS (Severe Acute Respiratory Syndrome) NCBI (USA)

  • SV40 T antigen Mutant Pittsburg (USA)

  • Tobamoviruses Oklahoma (USA)

  • Viper (various icosahedral virus structures) MMTSB (USA)

  • Viral genomes NCBI (USA)

  • VirGen (comprehensive viral genome resource) Pune (India)

  • VirOligo database Oklahoma (USA)

  • Virus pages (Astrovirus, Calicivirus, Picornavirus, Reovirus, Sequivirus) IAH (England)

  • Viroids

    • Subviral RNA Database Ottawa (Canada)

  Yeast

  • Data mining in yeast genome EBI (UK)

  • ExpressDB (yeast RNA expression data) Harvard (USA)

  • GeneQuiz: automated analysis of Yeast genome GeneCrunch (Switzerland)

  • Genolevures project Bordeaux (French)

  • Links to Yeast WWW sites and to SWISS-PROT entries Expasy

  • Protein-Protein Interaction YPC (USA)

  • Sage (Serial Analysis of Gene Expression) CYT (USA), see also Bielefeld (Germany)

  • The Sanger Centre

  • TRIPLES (database of TRansposon-Insertion Phenotypes, Localization, and Expression in Saccharomyces) Yale (USA)

  • Webminer (database of databases used to study gene expression patterns) UCSF (USA)

  • Yeast SGB (Stanford), analysis tools

  • Yeast Chromosome VI Expasy (SwissProt)

  • Yeast Chromosome XIII Expasy (SwissProt)

  • Yeast Genome Project (Complete genome) MIPS (Germany), see also Genome Viewer

  • Yeast Gene Duplications Dublin (Ireland)

  • Yeast Introns UCSC (USA)

  • Yeast Membrane Protein Library CBS (USA)

  • Yeast Protein Database Proteome (USA), see also Yeast protein 2D gel map

  • Yeast Protein Interaction Map Project Washington, see also YRC (USA)

  • yMGV (yeast microarray global viewer) ENS (French)

  • YPL (Yeast Protein Localization database) Graz (Austria)

  • YTPdb (Yeast Transport Protein db) ULB (Belgium)

  • Worm-Yeast Protein Comparison Stanford (USA)

  • SRS (linked libraries : LISTA, LISTAHON, LISTAHOP) : at EMBNet, HGMP (England), InfoBioGen (France), Sanger Centre (England), Weizmann Institute (Israel)

  • Candida albicans

    • ALCES www (Chromosomes, Physical maps, probes, lines, protocols)

    • Candida Genome Database (CGD) NIDCR-NIH (USA)

    • Links to C.albicans WWW sites and to SWISS-PROT entries Expasy

    • Sequencing of Candida Albicans Stanford (USA)

  • Saccharomyces

    • EUROSCARF Frankfurt (Germany)

    • GeneCensus (compilation of ORF data) Yale (USA)

    • MitBase - Pilot (mitochondrial biogenesis and its regulation) EBI (UK)

    • PEDANT MIPS (Germany)

    • SCMD (Morphological Database) Tokyo (Japan)

    • SCPD (Promoter Database of Saccharomyces cerevisiae) CSHL (USA)

    • Sequences of the S. cerevisiae chromosomes Alces

    • SGD Stanford (USA)

    • Small Nucleolar RNAs (snoRNAs) Massachusetts (USA)

    • WashU project GSC (USA)

    • SRS (linked libraries : YPD) : at EMBL (Heidelberg), also available YPDREF (bibliographic libraries : YPDREF)

    • SRS - SACXXX (genome libraries GMAP, LOC, ORF, PMAP, SEQ) : at Sanger Centre (England)

• • • Schizosaccharomyces pombe

      • S. pombe cosmids Sanger (UK)

      • S. Pombe database Sanger, see also Expasy

      • S. Pombe vectors, protocols .. Salk (USA)

  • Tetraodon

    • Genoscope (French)

    • Ensembl

  • Xenopus

    • Axeldb (Xenopus laevis) DKFZ (Germany)

    • EST Project GSC (USA)

    • Molecular Marker Resource Calgary (Canada), see also Xenbase

    • Trans-NIH Xenopus initiative NIH (USA)

    • Xenopus Microarray Project Rockefeller (USA)

  • Zebrafish

    • Ensembl

    • The FISH Net (Oregon) www, another link, mirror at Strasbourg (French), see also Wehi (Australia)

    • EST (WashU project) GSC (USA)

    • GeneNest Index (EST Clustering Projects) Max-Planck (Germany)

    • Wanda (database of duplicated genes in fish) Konstaz (Germany)

    • WashU-Zebrafish Genome Resources Project Washington (USA)

    • ZI (Harvard) www

    • Zebrafish Microsatellite Maps Harvard (USA)

    • Zebrafish Project Stanford (USA)

    
    　

• • DHMHD The dysmorphic human and mouse homology database (human and mouse malformation syndromes) (HGMP)

  • Gene-map Homology Search NIAI (Japan)

  • The Homeobox Page (homeobox genes : in particular about classification/evolution)

  • HomoloGene (orthologs and homologs for genes represented in UniGene and LocusLink for human, mouse, rat, and zebrafish) NCBI (USA)

  • Human and Nematode Orthologs NCBI (USA)

  • InParanoid (Database of pairwise orthologs) CGR (Sweden)

  • TAED (Adaptive Evolution Database) Stockholm (Sweden)

  • XLocus (an interspecies cross-reference of similar loci) (Yale)

  • XREFdb (cross-reference yeast genetics with mammalian phenotypes) (NCBI)

  
  　

• • ArrayExpress (public repository for microarray data) EBI (UK)

  • ChipDB - Gene expression db MIT (USA)

  • Dragon database (Database Referencing of Array Genes ON line) KKI (USA)

  • ExpressDB - Yeast and E.coli RNA expression db Harvard (USA)

  • GeneAnnot (comprehensive two-way linking between oligonucleotide array probesets and GeneCards genes) Weizmann (Israel)

  • GEO - Gene Expression Omnibus NCBI (USA)

  • GermOnline (database that provides access to microarray expression data from experiments relevant for the mitotic and meiotic cell cycle as well as gametogenesis), Tokyo (Japan) mirror at Stanford (USA)

  • Microarray facility Sanger (UK)

  • MUSC DNA Microarray Database Carolina (USA)

  • PEPR (GeneChip data warehouse, and implementation of a dynamic time series query tool (SGQT) with graphical interface) Washington (USA)

  • ProbeMatchDB (database for finding equivalent probes across microarray platforms and species) Michigan (USA)

  • RAD - RNA abundance db CBIL (USA)

  • SMD - Stanford microarray db Stanford (USA)

  • Xenopus Microarray Project Rockefeller (USA)

  　

• Aberrant Splicing Database of mammalian genes IMCB (Japan)

• ACLAME (collection and classification of mobile genetic elements (MGEs)) Brussels (Belgium)

• ACeDB Databases INRA, see also Heidelberg, see also Sanger, see also Webace MBG

• ALPSbase : Database of mutations causing human ALPS NHGRI-NIH (USA)

• Alternative splicing DB LBL (USA)

• Annotated Genomes ORNL (USA)

• ArrayExpress Database EBI (UK)

• Bacteria: Systematics Berkeley (USA)

• Bioverse (exploring the relationships among the molecular and genomic, proteomic, systems, and organismal worlds) Washington (USA)

• BRITE (Biomolecular Relations in Information Transmission and Expression) GenomeNet (Japan)

• CancerGene Database Villejuif (French)

• The Cancer Genome Anatomy Project (CGAP) NCBI (USA)

• CBS Databases (Filamentous fungi, Yeast, Bacteria, Aphyllophorales, Fusarium, Phabagen Collection) CBS (The Netherlands)

• Chromosome Abnormality Databases HGMP (UK)

• Clone Registry (Homo sapiens, Mus musculus, Rattus norvegicus) NCBI (USA)

• COGENT (COmplete GENome Tracking : a flexible data environment for computational genomics) EBI (UK)

• Comparative Genometrics Lausane (Switzerland)

• CORG (COmparative Regulatory Genomics : multi-species DNA comparison and annotation) Max Planck Institute (Germany)

• DEG (database of essential genes) Tianjin (China)

• Databases at USDA (ACEDB, Animals, Plants, C. elegans, Blocks, Enzyme Data Bank, Prosite, Rebase ...) Cornell (USA)

• dbERGE II (Database of Experimental Results for Gene Expression) Pennsylvania (USA)

• DOGS (Database Of Genome Sizes) CBS (Denmark)

• DBTSS (dataBase of transcriptional start sites) Tokyo (Japan)

• Entrez genome NCBI (USA), see also HomoloGene

• Environmental Genome Project (EGP) NIEHS (USA)

• ERGDB (Estrogen Responsive Genes Database) KELIIR (Singapore)

• Pathology Cytogenetics Resources UW (USA)

• Functional Categories (by organism) WIT

• GeneDB (resources for Schizosaccharomyces pombe, Leishmania major and Trypanosoma brucei) WTFGDI

• GeneX (gene expression database) NCGR (USA)

• GEO (Gene Expression Omnibus) NCBI (USA)

• The Genome Channel ORNL (USA)

• Genome Information Broker GIB (Japan)

• Genome Monitoring Table EBI (UK)

• Genome Projects Sanger (UK)

• Genomic Database Search (Pig, Cattle, Horse, Mouse, Human) www (Japan)

• The Genomic Threading Database (contains structural annotations of proteomes, translated from the genomes of key organisms) London (UK)

• Genomic tRNA Database (GtRDB) Washington (USA)

• GenLine (Electronic clinical genetics knowledge base) Washington (USA)

• GOLD (Genomes On Line Database) Illinois (USA)

• GOV (Gene Order Visualiser) Kent Ridge (Singapore)

• GTOP (Genomes TO Protein structures and functions) NIG (Japan)

• Homeodomain Resource NHGRI (USA)

• Immigrant: The database of immigrant genes Bioinformatics

• IGMS (Integrated Genetic Map Service) Berlin (Germany)

• Integrated Taxonomic Information System (ITIS) USDA (USA)

• KEGG (Kyoto Encyclopedia of Genes and Genomes) GenomeNet (Japan)

• Magpie (Automated Genomics Project Investigation Environment) Calgary (Canada)

• Mammalian Gene Mutation Database (MGMD) Swansea (UK)

• Mammalian Orthology and Comparative Maps MGI (USA)

• MethDB (DNA Methylation Database) Montpellier (French)

• OGRe (Organellar Genome Retrieval system) Manchester (UK)

• OMIA (Online Mendelian Inheritance in Animals) ANGIS (Australia)

• Omic space (coordinate-based integration and analysis of genomic phenomic interactions : H. sapiens, M. musculus, C. elegans, A. thalania) RIKEN (Japan)

• Pfam : taxonomy query Sanger (UK)

• PopSet (analyse the evolutionary relatedness of a population NCBI (USA)

• ProtEST (protein matches for ESTs : Human, rat, mouse, zebrafish, cow, frog, cress, rice, wheat, barley, maize) NCBI (USA)

• Recode (database of the translational recoding events) Utah (USA)

• Roslin Institute (Bovine, chicken, pig, sheep) www (UK)

• rSNP Guide (Transcription Factor Binding to DNA with Variations) ICG (Russian)

• SAGE (Serial Analysis of Gene Expression) NCBI, see also Sagenet

• STD (huamn sexually transmitted bacteria and viruses) LANL (USA)

• Taxonomy Database NCBI (GenBank)

• Taxonomy Workbench IMP (Austria)

• Telomere Database Genlink (USA)

• Teraprot (exhaustive comparison of 70 genomes) InfoBioGen (French)

• TGD : Tumor Gene Database BCM, another link (database of genes associated with tumorigenesis and cellular transformation)

• TIGR Database (Institute for Genomic Research) databases (links between source, collection, taxonomy, and molecular sequence data), see also CMR genomes

• Transgenic and Targeted Mutant Animal Database ORNL (Oak Ridge)

• UniGene (system for automatically partitioning GenBank sequences into a non-redundant set of gene-oriented clusters) NCBI (USA)

• Viral Diseases of Insects in the Literature (VIDIL) Illinois (USA)

• The Visible Human Project NCBI (USA)

• XPRO (database of eukaryotic protein-encoding DNA sequences in GenBank) NUS (Singapore)