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Human

• OMIM – Online Mendelian Inheritance in Man
• GENATLAS – Human genes atlas
• GeneClinics – Medical genetics knowledge base
• GDB – Genome Data Base
• GeneCards – Db integrating information on human genes
• The Genome Channel This system is a prototype graphical browser for querying the annotated reference genome.
• UDB – Unified db for Human genome mapping
• Ensembl Human genome browser
• UCSC human genome working draft
• TIGR HGI – TIGR Human Gene Index
• Hs UniGene – Human transcripts in GenBank (EST clusters)
• STACK – Sequence Tag Alignment and Consensus Knowledgebase (Db of consensus human ESTs)
• Allgenes.org – Human predicted gene index/catalog
• GenLink – Human genetics resource
• GeneLynx – Portal to the human genome
• GENOTK – Human cDNA db
• HUGE – Human Unidentified Gene-Encoded large proteins cDNA (KIAA…)
• HUNT – Human Novel Transcripts
• CGAP – Cancer Genome Anatomy Project
• MGC – Mammalian Gene Collection
• SCDb – Stem cell db
• Homophila – Human Disease to Drosophila gene db

Human mutation resources/databases

• HGMD – Human Gene Mutation db
• SVD – EBI Sequence variation db
• HGBASE – Human Genic Bi-Allelic Sequences db
• GeneDis – Human genetic disease db
• The SNP consortium
• dbSNP – Human single nucleotide polymorphism (SNP) db
• ALFRED – Allele Frequency Db
• SeattleSNPs – UW-FHCRC Variation Discovery Resource
• PicSNP – Catalog of non-synonymous SNP
• List of mutation databases from OMIM
• List of mutation databases from IMT (Finland)
• ADAbase – Human adenosine deaminase (ADA) mutation db
• ADB – Albinism db (Mutations in human genes causing albinism)
• Albumin Web site
• Alpha-glucosidase – Information about human acid alpha-glucosidase (GSD-II)
• APC mutation
• AR mutations – Human androgen receptor mutation db
• Antithrombin mutation db
• Asthma and Allergy gene db
• BIOMDB – Db of mutations causing tetrahydrobiopterin deficiencies
• BLMbase – Human BLM mutation db (Bloom syndrome)
• BTKbase – Human BTK mutation db (X-linked agammaglobulinemia)
• CD3Ebase – Human CD3E mutation db
• CD3Gbase – Human CD3G mutation db
• CD40Lbase – Human CD40 ligand mutation db
• COL1/3 mutation – Human Type I and III collagen mutation db
• Connexin-deafness – Human connexins mutation db
• CFTR mutation – Human cystic fibrosis mutation db (CFTR)
• EMD db – Human Emerin (EMD) mutation db (Emery-Dreifuss muscular dystrophy)
• KMeyeDB – Eye disease genes db
• FVII mutation – Human Factor VII mutation db
• HAMSTeRS – Human Factor VIII mutation db (Haemophilia A)
• HAeMB – Human Factor IX mutation db (Haemophilia B)
• FBN1 mutation – Human fibrillin 1 mutation db (Marfan syndrome)
• G6PD – Human G6PD deficiency resource
• G6PDdb – Human G6PD mutation db
• Galt mutation – Human galactose-1-phosphate uridylyltransferase mutation db (Galactosemia)
• GNAS1 – Human GNAS1 mutation db
• GM2 gangliosidoses – Human Hexosaminidase A (HEXA), B (HEXB) and GM2A mutation db (Tay-Sachs/Sandhoff diseases)
• HbVar – Hemoglobin variants db
• Hereditary hearing loss homepage
• IL2RGbase – Human IL2RG (Interleukin-2 receptor gamma) mutation db (X-SCID)
• L1CAM mutation – Human L1CAM mutation db
• LDLR mutation – Human LDLR mutation db (Familial hypercholesterolemia)
• LHR – Human luteinizing hormone (LH) receptor mutation db
• LQTSdb – Long QT syndrome db
• NCF1base – Human NCF1 mutation db
• NCF2base – Human NCF2 mutation db
• Neuromuscular diseases web site
• NCL – Neuronal Ceroid Lipofuscinoses mutation db
• NF1 – NF1 Genetic Mutation Analysis Consortium web site
• OCRL1 – OCRL1 mutation db (Lowe Syndrome)
• OTCase – Human ornithine transcarbamylase (OTCase) website
• Cytochrome P450 alleles nomenclature
• p53 mutation db – University of Tokyo p53 mutation db
• Germline p53 mutation db – University of Prague db of germline p53 mutations
• PAHdb – Human phenylalanine hydroxylase (PAH) mutation db
• PAX2 mutation – Human PAX2 mutation db
• PAX6 mutation – Human PAX6 mutation db
• Prion – Prion and prion disease web site
• RAG1base – Human RAG1 mutation db
• RAG2base – Human RAG2 mutation db
• RB1base – Human retinoblastoma-associated protein (RB) mutation db
• RetNet – Retinal Information Network
• Retina International Scientific Newsletter – Information on Retinal genes, proteins and diseases
• Alsod.org – ALS/SOD1 genetic mutations db
• TSC – TSC (TSC1/TSC2) variation db
• TSC2 – Cardiff-Rotterdam Tuberous Sclerosis (TS) db (Tuberin; TSC2)
• TGDB – Tumor gene db
• VMD2 mutation – Human VMD2 mutation db
• vWF mutation – Human von Willebrand factor (vWF) mutation db
• WRN – Human WRN mutation db (Warner disease)
• WT1 mutation – Human WT1 mutation db
• X-ALD mutation – Human ABCD1 mutation db

Biochemical db

•   Green Pi-the Phosphate Knowledge Center

Vertebrates

• OMIA – Online Mendelian Inheritance in Animals
• MGI – Mouse Genome Informatics (includes MGD) [Mirrors in Australia | UK | Japan ] MGI – Mouse Genome Informatics (includes MGD) [Mirrors in Australia | UK | Japan ]
• Ensembl Mouse genome browser
• TIGR MGI – TIGR Mouse Gene Index
• Mm UniGene – Mouse transcripts in GenBank (EST clusters)
• MGC – Mammalian Gene Collection
• Mouse gene knockouts db
• Mouse chromosome 16 at Celera
• RGD – Rat genome db
• RatMAP – Rat genome db
• TIGR RGI – TIGR Rat Gene Index
• Rn Unigene – Rat transcripts in GenBank (EST clusters)
• BovBASE – Bovine genome db (in UK)
• BOVMAP – Bovine genome db (in France)
• Ark-Cat – Cat genome db
• HorseBASE – Horse genome db
• DGP – Dog Genome Project
• PiGBASE – Pig genome db
• SheepBASE – Sheep genome db (also known as SheepMap)
• MIS – Mendelian Inheritance in Sheep
• Chickmap – Chicken genome db (ChickBase)
• Turkey mapping db
• FishBase – Global information system on fishes
• Fugu genome project
• Fugu – HGMP Resource Centre Fugu Project (Fugu rubripes)
• Ensembl Fugu genome browser
• Medakafish – Mekada fish (Oryzias latipes) server
• Ark-Tilapia – Tilapia mossambica genome db
• The fish net – Zebrafish server
• Ensembl Zebrafish genome browser

Inveretbrates

• WormBase – C.elegans db [Mirror at Sanger ]
• C.elegans WWW server – at University of Texas Southwestern
• ACeDb – Caenorhabditis elegans db
• C.elegans Mitochondrial Directory – Data on C.elegans genes for mitochondrial proteins
• C.elegans EST – C.elegans EST db from Japan (Yuji Kohara’s group)
• C.elegans Swiss-Prot list – Links to C.elegans Swiss-Prot entries
• WormPep – C.elegans proteins db
• WormPD – C.elegans protein db
• Dictystelium Genome Sequencing project at BCM
• Dictyostelium discoideum genome project at IENA
• DictyDb – Dictyostelium discoideum db
• Dicty_cDB – Dictyostelium discoideum cDNA project
• Cone shells Web site
• Parasite genomes db and resources
• Parasite genomes WWW site
• PlasmoDB – P.falciparum genome db
• Malaria – WHO – Malaria db (from WHO)
• P.falciparum Sanger – P.falciparum genome project at Sanger
• PFDB – Plasmodium falciparum Genome db
• P.falciparum – Plasmodium falciparum Gene Sequence Tag project
• MAD – Malaria Antigen db
• Malaria parasite metabolic pathways
• Giardia lamblia genome project
• LGN – Leishmania Genome Network
• ToxoDB – Toxoplasma gondii genome project
• Trypanosoma brucei genome project
• Trypanosoma cruzi genome project
• kDNA – Kinetoplast Minicircle Sequence db

Insects

• Drosophila Swiss-Prot list – Links to Drosophila Swiss-Prot entries
• FlyBase – Drosophila genetic and molecular db [Mirror at EBI ]
• BDGP – Berkeley Drosophila Genome Project
• FlyView – Drosophila image db
• GIFTS – Gene Interactions in the Fly Trans-World Server
• FlyNets – Db of molecular interactions in Drosophila melanogaster
• Drosophila P450 Web site
• Homophila – Human Disease to Drosophila gene db
• Mosquito Genomics
• AnoDB – Anopheles gambiae db
• Ensembl Mosquito genome browser

Plants

• NAL – AGIS – Access to many plant genome databases at the National Agricultural Library
• Mendel – Plant gene nomenclature database from CPGN

• Arabidopsis Swiss-Prot list – Links to A.thaliana WWW sites and to Swiss-Prot entries

• TAIR – The Arabidopsis Information Resource

• MATDB – MIPS Arabidopsis thaliana db

• TIGR At – TIGR Arabidopsis thaliana db

• Arabidopsis ABC transporters

• AMPL – Arabidopsis Membrane Protein Library

• Arabidopsis at PlaCe – Site with info on P450, glucosyltransferases, etc.

• Gramene – A comparative mapping resource for grains

• KOMUGI (Japan)
  GrainGenes , a genome database for Triticeae and related species. RiceGenes a genome database for rice.

• RGP – Rice Genome Research Program

• Oryzabase – Japanese rice genome db

• RiceGAAS: Rice Genome Annotation Database
  A rice genome automated annotation system; integrates programs for prediction and analysis of protein-coding gene structure.

• Rice genome project at Wisconsin

• Rice-research.org – Monsanto rice genome site

• TIGR OsGI – TIGR Rice Genome project

• BeanGenes – Beans genome db

• BeanRef-Links and references from literature to different aspects of research on beans (Phaseolus and Vigna) – Beans genome db and other resources

• Chlamydomonas resource center

• ChlamyDB – Chlamydomonas reinhardtii genome db

• CottonDB – Cotton genome db

• MaizeDb – Maize genome db

• Mendel Bioinformatics Group , UK
  Mendel-ESTS , contains all of the plant EST and STS sequences currently in dbEST and dbSTS (>94,000) related to the sequences, grouped by gene family, in the Gene Family Database .
  Mendel-GFDb Database of Genes Organized by Families. Now with Pfam, Prosite & TRANSFAC domain information

• Mendel-CPGN : developinging a common nomenclature for sequenced plant genes

• INRA Maize – INRA Maize genome db

• Plant Chromatin Database
  Database for chromatin proteins in plants, including functions and molecular phylogenetic relationships, with initial emphasis on Arabidopsis and maize

• Pisum sativum (pea) web site

• TIGR Potato – TIGR Potato Functional Genomics project

• TIGR GmGI – TIGR Soybean Gene Index

• Snapdragon (A.majus) web site

• SolGenes — Genome Database for the Solanaceae
  A U.S.D.A.-funded Genome Database for the Solanaceae, containing information about potatoes, tomatoes, peppers, and related species.

• SorghumDB – Sorghum genome db

• SIU-C Soy Phytoestrogen Gene Mapping

• SoyBase – Soybean genome db

• SoyBase metabolic db – Metabolic subset of the soybean genome db

• TIGR LeGI – TIGR Tomato Gene Index

• Dendrome – Forest trees genome db

• ZmDB Maize Genome Database
  Goals include discovering maize genes using EST sequencing and engineered Mu (RescueMu) tagging, and developing new tools to facilitate gene mapping and phenotypic analysis.

Fungi

• FGSC – Fungal Genetics Stock Center
• FGR – Fungal Genome Resource
• Yeast Swiss-Prot list – Links to S.cerevisiae WWW sites and to Swiss-Prot entries
• CYGD – MIPS Comprehensive Yeast Genome db
• SGD – Saccharomyces genome db
• MitBASE-Pilot – Db of S.cerevisiae nuclear genes involved in mitochondrial biogenesis
• Yeast snoRNA – Yeast small nucleolar RNAs db
• YTPdb – Yeast Transport Protein db
• YMPL – Yeast Membrane Protein Library
• PathCalling – Yeast protein-protein interaction db
• S.pombe Swiss-Prot list – Links to S.pombe WWW sites and to Swiss-Prot entries
• GeneDB_SPombe – Schizosaccharomyces pombe GeneDB
• S.pombe genome project
• S.pombe NIH – S.pombe server at the NIH
• Forsburg lab pombe pages
• AGD – Ashbya genome db
• Aspergillus web site
• C.albicans Swiss-Prot list – Links to C.albicans WWW sites and to Swiss-Prot entries
• Candida albicans – Candida albicans server at the Univ. of Minnesota
• CandidaDB – Candida albicans genome db
• Neurospora crassa db
• NGP – Neurospora crassa genome project
• PC – Pneumocystis carinii genome project
• Phycomyces Web site – Resource site for scientists working on Phycomyces

Bacteria

• WDCM – World Data Center for Microorganisms
• List of Bacterial Names with Standing in Nomenclature
• CMR – TIGR Comprehensive Microbial Ressource
• GIB – Genome information broker for Microbial genomes
• GeneQuiz
• HOBACGEN – Homologous Bacterial Genes db
• Comparison of the transport capabilities of bacterial genomes – from Ian Paulsen
• BPGD – Bacterial polysaccharide gene db
• Bacterial quorum sensing
• MicrobeWorld – Educational site on microbes
• E.coli Swiss-Prot list – Links to E.coli WWW sites and to Swiss-Prot entries
• EcoWeb / EcoGene – Very comprehensive E.coli db
• ECCE – E.coli Cell Envelope Protein Data Collection
• ECDC – E.coli db collection
• EcoCyc – Encyclopedia of E.coli genes and metabolism
• GenProtEC – E.coli genome and proteome db
• Colibri – E.coli genome db from Pasteur Institute
• ECGC – E.coli Genome Center at Wisconsin University
• DDBJ E.coli – E.coli home page at DDBJ
• EcoReg – The E.coli regulation consortium
• B.subtilis Swiss-Prot list – Links to B.subtilis WWW sites and to Swiss-Prot entries
• SubtiList – Bacillus subtilis genomic db
• NRSub – Bacillus subtilis non-redundant db [Mirror in Japan ]
• Micado – Microbial advanced db (B.subtilis + E.coli)
• BSORF – Japanese server on B.subtilis
• DBTBS – Db of B.subtilis promoters and transcription factors
• A.actinomycetemcomitans – Actinobacillus actinomycetemcomitans strain HK1651 genome project
• B.anthracis at CNBP – Bacillus anthracis strain Ames WWW site
• B.halodurans – Bacillus halodurans strain C-125 db
• B.stearothermophilus – Bacillus stearothermophilus strain 10 genome project
• BGDB – Bordetella genome db
• B.bronchiseptica – Bordetella bronchiseptica strain RB50 genome project at Sanger Institute
• B.parapertussis – Bordetella parapertussis strain 12822 genome project at Sanger Institute
• B.pertussis – Bordetella pertussis strain Tohama I genome project at Sanger Institute
• BbDB – TIGR Borrelia burgdorferi genome db
• B.aphidicola Swiss-Prot list – Links to B.aphidicola Swiss-Prot entries
• iBGD – Integrated Buchnera genome db
• B.cepacia – Burkholderia cepacia genome project
• C.jejuni – Campylobacter jejuni strain NCTC 11168 genome project
• Chlamydia – Chlamydia pneumoniae and trachomatis
• C.muridarum – Chlamydia muridarum strain MoPn genome db at TIGR
• C.pneumoniae AR39 – Chlamydia pneumoniae strain AR39 genome db at TIGR
• C.pneumoniae J138 – Japanese Chlamydia pneumoniae strain J138 genome db http://www.brgene.lncc.br/indexCV.html
• C.michiganensis Claviabacter michiganensis subsp. sepdonicus genome project at Sanger Institute
• C.acetobutylicum – GTC Clostridium acetobutylicum strain ATCC 824 data
• C.difficile – Clostridium difficile strain 630 genome project at Sanger Institute
• C.diphtheriae – Corynebacterium diphtheriae strain NCTC 13129 genome project at Sanger Institute
• C.ruminantium – Cowdria ruminantium genome project at Sanger Institute
• C.hutchinsonii – Cytophaga hutchinsonii genome project
• DrDB – TIGR Deinococcus radiodurans strain R1 genome db
• D.hafniense – Desulfitobacterium hafniense genome project
• E.faecium – Enterococcus faecium genome project
• F.acidarmanus – Ferroplasma acidarmanus genome project
• F.tularensis – Francisella tularensis genome WWW site
• H.influenzae Swiss-Prot list – Links to H.influenzae WWW sites and to Swiss-Prot entries
• HiDB – Haemophilus influenzae genome db at TIGR
• H.pylori Swiss-Prot list – Links to H.pylori WWW sites and to Swiss-Prot entries
• HpDB – Helicobacter pylori strain 26695 genome db at TIGR
• H.pylori J99 – Helicobacter pylori strain J99 genome db at Astra
• PyloriGene – Helicobacter pylori genomic db
• L.lactis – Lactobacillus lactis subsp. lactis strain IL1403 genome db
• L.plantarum – Lactobacillus plantarum genome project
• ListiList – Listeria monocytogenes and Listeria innocua genome db
• MC-1 – Magnetococcus MC-1 genome project
• M.magnetotacticum – Magnetospirillum magnetotacticum genome project
• MycDB – Mycobacterium db
• M.bovis – Mycobacterium bovis strain AF2122/97 genome project
• Leproma – Mycobacterium leprae strain TN genome db
• M.leprae at Sanger – Mycobacterium leprae genome project at Sanger Institute
• TubercuList – Mycobacterium tuberculosis strain H37Rv genome db
• MtDB – Mycobacterium tuberculosis strain Oshkosh genome db at TIGR
• M.tuberculosis at Sanger – Mycobacterium tuberculosis strain H37Rv genome project at Sanger Institute
• M.tuberculosis secreted proteins
• M.tuberculosis structural genomics consortium
• M.genitalium Swiss-Prot list – Links to M.genitalium Swiss-Prot entries
• MgDB – Mycoplasma genitalium genome db at TIGR
• M.pneumoniae Swiss-Prot list – Links to M.pneumoniae Swiss-Prot entries
• M.pneumoniae – Mycoplasma pneumoniae genome project
• MypuList – Mycoplasma pulmonis genome db
• Mycoplasma synoviae genome db
• N.meningitidis A – Neisseria meningitidis serogroup A strain Z2491 genome project at Sanger Institute
• N.meningitidis B – Neisseria meningitidis serogroup B strain MC58 genome db at TIGR
• N.gonorrhoeae – Neisseria gonorrhoeae strain FA 1090 genome project
• N.europaea – Nitrosomonas europaea genome project
• N.punctiforme – Nostoc punctiforme genome project
• P.marinus – Prochlorococcus marinus genome project
• P.aeruginosa project – Pseudomonas aeruginosa genome project
• P.aeruginosa db – Pseudomonas aeruginosa genome db
• P.fluorescens – Pseudomonas fluorescens genome project
• R.solanacearum – Ralstonia solanacearum genome project
• Rhizobium pNGR234a Swiss-Prot list – Links to Rhizobium plasmid pNGR234a Swiss-Prot entries
• Rhizobium pNGR234a analysis
• RsGDB – Rhodobacter sphaeroides genome db
• R.sphaeroides – Rhodobacter sphaeroides genome project
• R.palustris – Rhodopseudomonas palustris genome project
• RicBase – Rickettsia conorii strain Malish 7 genome project
• R.prowazekii Swiss-Prot list – Links to Rickettsia prowazekii Swiss-Prot entries
• R.prowazekii – Rickettsia prowazekii strain Madrid E genome project
• S.typhi – Salmonella typhi strain CT18 genome project at Sanger Institute
• S.typhimurium Swiss-Prot list – Links to S.typhimurium Swiss-Prot entries
• S.typhimurium – S.typhimurium genome project
• RhizoBase – Sinorhizobium loti genome project
• S.meliloti – Sinorhizobium meliloti genome project
• S.aromaticivorans – Sphingomonas aromaticivorans genome project
• S.aureus – Staphylococcus aureus strain NCTC 8325 genome project
• S.mutans – Streptococcus mutans strain UAB159 genome project
• S.pyogenes M1 – Streptococcus pyogenes strain SF370 serotype M1 genome project
• S.pyogenes M5 – Streptococcus pyogenes strain Manfredo serotype M5 genome project at Sanger Institute
• S.suis – Streptococcus suis genome project at Sanger Institute
• S.uberis – Streptococcus uberis genome project at Sanger Institute
• S.coelicolor – Streptomyces coelicolor strain A3(2) genome project at Sanger Institute
• S.avermitilis – Streptomyces avermitilis strain MA-4680 genome project
• PCC 6803 Swiss-Prot list – Links to Synechocystis PCC 6803 Swiss-Prot entries
• CyanoBase – Synechocystis PCC 6803 db
• Synechococcus – Marine synechococcus genome project
• T.fusca – Thermomonospora fusca genome project
• TmDB – Thermotoga maritima genome db at TIGR
• TpDB – Treponema pallidum genome db at TIGR
• T.erythraeum – Trichodesmium erythraeum genome project
• T.whipplei – Tropheryma whipplei genome project at Sanger Institute
• U.urealyticum – Ureaplasma urealyticum genome WWW site
• VcDB – Vibrio cholerae genome db at TIGR
• Xanthomonas – Xanthomonas genome projects
• X.fastidiosa – Xylella fastidiosa genome WWW site
• X.fastidiosa at DOE – DOE Xylella fastidiosa genome project
• Y.enterocolitica – Yersinia enterocolitica strain 8082 genome project at Sanger Institute
• Y.pestis at Sanger – Yersinia pestis strain CO-92 Biovar Orientalis genome project at Sanger Institute
• Y.pestis at CNBP – Yersinia pestis genome WWW site

Viruses & Phages

• All the virology on the WWW – links to virology WWW servers by David M. Sander
• ICTVdB – Universal virus taxonomy db
• AVIS – Animal Virus Information System
• Plants Viruses Online – Information on plant viruses
• Adenoviruses web site
• HCVDB – Hepatitis C virus db
• HIV – HIV and related species db
• HPV – Human papillomaviruses db
• Influenza sequence db
• Picornavirus – Picornavirus home page and access to db
• Tobamoviruses
• PhageBase
• Bacteriophage ecology group
• GOLD – Genomes On-line db
• DOGS – Database of genome sizes

Archaea

• A.pernix – Aeropyrum pernix K1 genome db
• AfDB – Archaeoglobus fulgidus genome db at TIGR
• Halobacterium NRC-1 – Halobacterium strain NRC-1 genome project
• M.thermoautotrophicum – Methanobacterium thermoautotrophicum genome db
• M.jannaschii Swiss-Prot list – Links to M.jannaschii Swiss-Prot entries
• MjDB – Methanococcus jannaschii genome db at TIGR
• MjFdb – Methanococcus jannaschii functions db
• M.barkeri – Methanosarcina barkeri genome project
• Pyrococcus abyssi genome and re-annotation db
• P.abyssi – Pyrococcus abyssi genome project and db
• P.furiosus – Pyrococcus furiosus genome project
• P.horikoshii – Pyrococcus horikoshii OT3 db
• SGP – Sulfolobus solfataricus strain P2 genome project
• T.acidophilum – Thermoplasma acidophilum genome project
• T.volcanium – Thermoplasma volcanium genome project

Mitochondrian & Chloroplast

• GOBASE – Organelle Genome Database
• MitoDat – Mendelian Inheritance and the Mitochondrion db (mitochondrial nuclear genes)
• MITOMAP – Human mitochondrial genome db
• MmtDB – Metazoa mitochondrial DNA variants db
• MitBASE – Integrated mitochondrial DNA db
• MitBASE-Pilot – Db of S.cerevisiae nuclear genes involved in mitochondrial biogenesis
• HvrBase – Primates mtDNA control region sequences compilation
• MOUSE – Mitochondrial and Other Useful SEquences (human and apes mit. DNA db)
• C.caldarium – Cyanidium caldarium strain RK1 chloroplast genome