Amos' WWW links page

Protein 3D structure and associated topics databases
PDB - Protein Data Bank [Mirrors in EBI] BioMagResBank - Repository for data on proteins, peptides, and nucleic acids from NMR spectroscopy SWISS-MODEL Repository - Automatically generated protein models db ModBase - Db of comparative protein structure models CATH - UCL BSM structural classification of proteins SCOP - Structural classification of proteins [Mirror at USA | Israel | Singapore | Australia] Mol_R_Us - Molecules R Us, browser for PDB BMM Domain Server - Biomolecular Modelling Laboratory (ICRF) protein domain server PRESAGE - Collaborative resource for structural genomics ReLiBase - Receptor/ligand complexes db [Mirror in USA] TOPS - Protein topology atlas CCDC - Cambridge Crystallographic Data Center (Cambridge Stuctural Db (CSD)) HSSP - Homology-derived secondary structure of proteins db MutaProt - Comparison of PDB files which differ by point mutations   SWISS-3DIMAGE - 3D images of proteins and other biological macromolecules BioImage - Biological image db (contains imaging data on macromolecules)
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Protein 2D-PAGE and MS databases
WORLD-2DPAGE - A complete index of 2D-PAGE db and servers Phoretix links - Phoretix page of links to 2D gel db
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Nucleotide and associated topics databases
EMBL - EMBL Nucleotide sequence db (EBI) Genbank - GenBank Nucleotide Sequence db (NCBI) DDBJ - DNA Data Bank of Japan dbEST - dbEST (Expressed Sequence Tags) db (NCBI) dbSTS - dbSTS (Sequence Tagged Sites) db (NCBI)   NDB - Nucleic Acid Databank (3D structures) BNASDB - Nucleic acid structure db from University of Pune   AsDb - Aberrant Splicing db ACUTS - Ancient conserved untranslated DNA sequences db Codon Usage Db EPD - Eukaryotic Promoter db HOVERGEN - Homologous Vertebrate Genes db IMGT - ImMunoGeneTics db [Mirror at EBI] ISIS - Intron Sequence and Information System RDP - Ribosomal db Project gRNAs db - Guide RNA db PLACE - Plant cis-acting regulatory DNA elements db PlantCARE - Plant cis-acting regulatory DNA elements db sRNA db - Small RNA db ssu rRNA - Small ribosomal subunit db lsu rRNA - Large ribosomal subunit db 5S rRNA - 5S ribosomal RNA db tmRNA Website tmRDB - tmRNA dB tRNA - tRNA compilation from the University of Bayreuth uRNADB - uRNA db RNA editing - RNA editing site RNAmod db - RNA modification db SOS-DGBD - Db of Drosophila DNA sequences annotated with regulatory binding sites TelDB - Multimedia Telomere Resource TRADAT - TRAnscription Databases and Analysis Tools Subviral RNA db - Small circular RNAs db (viroid and viroid-like)   MPDB - Molecular probe db OPD - Oligonucleotide probe db VectorDB - Vector sequence db (seems dead!)
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Carbohydrates resources
TGN - The Glycoscience Network FCCA - Forum Carbohydrates Coming of Age CARBHYD - Carbohydrate information WWW sites GlycoSuiteDB - Db of glycan structures Monosacharide browser - Space filling Fischer projection for monosaccharides Thorkild's lectin page - Gateway to lectins
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Species specific databases
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 UDB - Unified db for Human genome mapping Ensembl - Human genome annotations site 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 SCDb - Stem cell db Homophila - Human Disease to Drosophila gene db Chr1 at Rutgers - Human chromosome 1 at Rutgers Chr1 at Sanger - Sanger Center chromosome 1 project Chr1 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 1 Chr2 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 2 Chr3 - Human chromosome 3 db at the University of Texas Health Science Center Chr3 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 3 Chr4 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 4 Chr5 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 5 Chr6 at Sanger - Sanger Center chromosome 6 project Chr6 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 6 Chr7 - Human chromosome 7 db at Ontario's Hospital for Sick Children Chr7 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 7 Chr8 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 8 Chr9 at Sanger - Sanger Center chromosome 1 project Chr9 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 9 Chr9 - Human chromosome 9 db Chr10 at Sanger - Sanger Center chromosome 10 project Chr10 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 10 11DB - Human chromosome 11 db at Imperial College (U.K.) Chr11 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 11 Chr12 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 12 Chr13 at Sanger - Sanger Center chromosome 13 project Chr13 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 13 Chr14 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 14 Chr15 UBC - Human chromosome 15 WWW page at UBC Chr15 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 15 Chr16 LANL - Human chromosome 16 db at Los Alamos National Laboratory Chr16 TIGR - Human chromosome 16 db at TIGR Chr16 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 16 Chr17 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 17 Chr18 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 18 Chr18 - Human chromosome 18 at Boston Children's Hospital Chr19 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 19 Chr20 at Sanger - Sanger Center chromosome 20 project Chr20 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 20 Chr21 at RIKEN - Human chromosome 21 genome site at RIKEN (Japan) Chr21 at ERI - Human chromosome 21 genomic sequence db from the Eleanor Roosevelt Institute Chr21 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 21 Chr22 at Sanger - Sanger Center chromosome 22 project Chr22 at HGC - Human genome center for chromosome 22 Chr22 SWISS-PROT list - Links to SWISS-PROT entries from human chromosome 22 ChrX at Sanger - Sanger Center chromosome 1 project IXDB - Integrated X chromosome db ChrX SWISS-PROT list - Links to SWISS-PROT entries from human chromosome X ChrY SWISS-PROT list - Links to SWISS-PROT entries from human chromosome Y
Vertebrates
OMIA - Online Mendelian Inheritance in Animals MGI - Mouse Genome Informatics (includes MGD) [Mirrors in Australia | UK | Japan] TIGR MGI - TIGR Mouse Gene Index Mm UniGene - Mouse transcripts in GenBank (EST clusters) Mouse gene knockouts db 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 Fugu - HGMP Resource Centre Fugu Project (Fugu rubripes) Medakafish - Mekada fish (Oryzias latipes) server Ark-Tilapia - Tilapia mossambica genome db The fish net - Zebrafish server FishBase - Global information system on fishes
Mitochondrion and 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
Insects
Drosophila SWISS-PROT list - Links to Drosophila SWISS-PROT entries FlyBase - Drosophila genetic and molecular db [Mirror at EBI] FlyView - Drosophila image db GIFTS - Gene Interactions in the Fly Trans-World Server FlyNets - Db of molecular interactions in Drosophila melanogaster SOS-DGBD - Db of Drosophila DNA sequences annotated with regulatory binding sites Drosophila P450 Web site Homophila - Human Disease to Drosophila gene db Mosquito Genomics AnoDB - Anopheles gambiae db
Invertebrates
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 Trypanosoma brucei genome project Trypanosoma cruzi genome project kDNA - Kinetoplast Minicircle Sequence db
Plants
NAL - AGIS - Access to many plant genome databases at the National Agricultural Library ARS Genome Database Resource - Access to many plant genome databases at the USDA-ARS Mendel - Plant gene nomenclature database from CPGN   TAIR - The Arabidopsis Information Resource MATDB - MIPS Arabidopsis thaliana db TIGR AtGI - TIGR Arabidopsis thaliana Gene Index Arabidopsis ABC transporters AMPL - Arabidopsis Membrane Protein Library Arabidopsis at PlaCe - Site with info on P450, glucosyltransferases, etc.   BeanGenes - Beans genome db BeanRef - Beans genome db and other resources ChlamyDB - Chlamydomonas reinhardtii genome db CottonDB - Cotton genome db MaizeDb - Maize genome db INRA Maize - INRA Maize genome db Pisum sativum (pea) web site RGP - Rice Genome Research Program RiceGenes Rice-research.org - Monsanto rice genome site TIGR OsGI - TIGR Rice Genome project TIGR Potato - TIGR Potato Functional Genomics project TIGR GmGI - TIGR Soybean Gene Index Snapdragon (A.majus) web site SorghumDB - Sorghum genome db 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
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 YPD - Yeast proteome 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   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 Neurospora crassa db NGP - Neurospora crassa genome project PC - Pneumocystis carinii genome project S.pombe SWISS-PROT list - Links to S.pombe WWW sites and to SWISS-PROT entries S.pombe genome project S.pombe NIH - S.pombe server at the NIH Forsburg lab pombe pages 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 Insitute ECGC - E.coli Genome Center at Wisconsin University DDBJ E.coli - E.coli home page at DDBJ   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   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 B.pertussis - Bordetella pertussis genome WWW site BbDB - TIGR Borrelia burgdorferi genome db iBGD - Integrated Buchnera genome db B.cepacia - Burkholderia cepacia genome project C.jejuni - Campylobacter jejuni strain NCTC 11168 genome WWW site Chlamydia - Chlamydia pneumoniae and trachomatis C.muridarum - TIGR Chlamydia muridarum strain MoPn genome db C.pneumoniae AR39 - TIGR Chlamydia pneumoniae strain AR39 genome db C.pneumoniae J138 - Japanese Chlamydia pneumoniae strain J138 genome db C.acetobutylicum - GTC Clostridium acetobutylicum strain ATCC 824 data 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 - TIGR H.influenzae genome db H.pylori SWISS-PROT list - Links to H.pylori WWW sites and to SWISS-PROT entries HpDB - TIGR Helicobacter pylori strain 26695 genome db H.pylori J99 - Astra Helicobacter pylori strain J99 genome db 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 Leproma - Mycobacterium leprae strain TN genome db M.leprae at Sanger - Sanger Centre M.leprae genome project TubercuList - Mycobacterium tuberculosis strain H37Rv genome db MtDB - TIGR Mycobacterium tuberculosis strain Oshkosh genome db M.tuberculosis at Sanger - Sanger Centre M.tuberculosis H37Rv genome project M.tuberculosis secreted proteins M.tuberculosis structural genomics consortium M.genitalium SWISS-PROT list - Links to M.genitalium SWISS-PROT entries MgDB - TIGR Mycoplasma genitalium genome db M.pneumoniae - Mycoplasma pneumoniae genome project MypuList - Mycoplasma pulmonis genome db N.meningitidis A - Sanger Centre Neisseria meningitidis serogroup A strain Z2491 genome project N.meningitidis B - TIGR Neisseria meningitidis serogroup B strain MC58 genome db 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.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 - Streptococcus pyogenes strain M1 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 - TIGR Thermotoga maritima genome db TpDB - TIGR Treponema pallidum genome db T.erythraeum - Trichodesmium erythraeum genome project U.urealyticum - Ureaplasma urealyticum genome WWW site VcDB - TIGR Vibrio cholerae genome db X.citri - Xanthomonas cititi genome WWW site X.fastidiosa - Xylella fastidiosa genome WWW site X.fastidiosa at DOE - DOE Xylella fastidiosa genome project Y.pestis at Sanger - Yersinia pestis strain CO-92 Biovar Orientalis genome WWW site Y.pestis at CNBP - Yersinia pestis genome WWW site
Archaea
A.pernix - Aeropyrum pernix K1 genome db AfDB - TIGR Archaeoglobus fulgidus genome db 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 - TIGR Methanococcus jannaschii genome db MjFdb - Methanococcus jannaschii functions db M.barkeri - Methanosarcina barkeri genome project 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
Viruses and 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 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
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Human mutation databases/resources
HGMD - Human Gene Mutation db SVD - EBI Sequence variation db HGBASE - Human Genic Bi-Allelic Sequences db The SNP consortium dbSNP - Human single nucleotide polymorphism (SNP) db ALFRED - Allele Frequency Db   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) Alpha-glucosidase - Information about human acid alpha-glucosidase (GSD-II) 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 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 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
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Gene(s)/protein(s) specific databases/resources
AAA - AAA family of ATPases server Arabidopsis ABC transporters Acetylcholinesterases ADAMTS - Apte lab ADAMTS and ADAMTSL resource ALDH - Aldehyde dehydrogenase gene superfamily db Allergens in SWISS-PROT - Nomenclature and index of allergens in SWISS-PROT Allergen sequence db Alginate genes - Pseudomomonas alginate production genes Aminoacyl-tRNA synthetases in SWISS-PROT - List of aminoacyl-tRNA synthetases in SWISS-PROT AARSDB - Aminoacyl-tRNA synthetases db Aminoacyl-tRNA synthetases from P. Dessen AMSDb - Antimicrobial sequences db Antibody resource page - Links to antibody related Web resources AraC-XylS - AraC/xylS transcriptional regulator family db Bacillus thuringiensis toxin specificity db TFII - Basal transcription factors Blood group antigens in SWISS-PROT BCGD - Breast cancer genes db from MBCR BRENDA - Db of enzyme functional data EF-hand CaBP - EF-hand calcium-binding proteins db CANSITE - Signal Transduction's Web CAZy - Carbohydrate-Active enZYmes Web site CBS domain - Cystathionine Beta Synthase domain WWW page CD antigens in SWISS-PROT - Nomenclature for surface proteins of human leucocytes (CD) CD antigens in PROW - Database on information about CD antigens Chaperonin - Information on GroEL and GroES chaperonins Conotoxins - Information on conotoxins from a Web site on cone shells Cytokines Web - Structure and function of cytokines and their receptors COPE - Cytokines On-line Pathfinder Encyclopedia [Mirror in Israel] dbCFC - Cytokine family cDNA db R&D Systems' Cytokine mini reviews DExH/D protein family db DnaB helicase DPInteract - DNA-Proteins interactions db EMP - Enzymes and Metabolic Pathways db ENZYME - Enzymes nomenclature db Worthington enzyme manual Eph - Eph receptor tyrosine kinases and their ligands (ephrins) resource EpoDB - Erythropoiesis gene expression db (Epo GED) ESTHER - Esterases and alpha/beta hydrolase enzymes Expansins web site Modules - Extracellular proteins modules (domains) FADPNR - FAD-dependent pyridine nucleotide oxidoreductases Flavodoxins FlyNets - Db of molecular interactions in Drosophila melanogaster FYVE finger domain GABAagent - GABA receptors WWW site Globin - Globin gene server Glucoamylases Glycosyl hydrolases in SWISS-PROT - Nomenclature and index of glycosyl hydrolases in SWISS-PROT 7TM in SWISS-PROT - List of G protein coupled receptors in SWISS-PROT GCRDb - G protein-coupled receptor db GPCRDB - G protein-coupled receptor db (7TM) at EMBL ORDB - Olfactory receptor db HORDE - Human Olfactory Receptor Data Exploratorium GRAP - G protein coupled receptors family A mutants db GRR - Glucocorticoid receptor resource Arabidopsis Glucosyltransferases Web site Glycosyltransferases - A guide to cloned glycosyltransferases GnRH - Gonadotropin-releasing hormones (GnRH) family GyrB - GyrB protein Yeast RNA helicases Histone - Histones db HIVdb - HIV protease db HotMolecBase - Molecules (mainly proteins) that are promising targets for medical applications Homeobox - Homeobox domain proteins resource HOX-Pro - Homeobox genes db Hox proteins in SWISS-PROT - Vertebrate homeotic Hox proteins: nomenclature and index of SWISS-PROT entries Labial - Homeobox genes, labial family HSP100 - HSP100/ClpAB family of chaperones InBase - Inteins db from the New England Biolabs Integrins Meganucleases - Sites on intron encoded endonucleases ICN - The Ion Channel Network Initiation factors in SWISS-PROT - List and index of translation initiation factors in SWISS-PROT IF2 - Translation initiation factor IF2 db KEGG - Kyoto Encyclopedia of Genes and Genomes Kinesin - Kinesin motor proteins Klotho - Biochemical compounds declarative db LGIC - Ligand Gated Ion Channel subunit db LED - Lipase Engineering Database Lipocalin Website MDB - Metalloprotein Site Database and Browser Metallothioneins in SWISS-PROT - Nomenclature and index of metallothioneins in SWISS-PROT MT - Metallothioneins MHCPEP - MHC binding peptides db SYFPEITHI - MHC ligands and peptide motifs db Mitochondrial carriers pages from Nelson's lab MitoPick - Mitochondrial NADH-ubiquinone reductase (complex I) web site MRR - Mineralocorticoid receptor resource Mutator - Transposases, Mutator family MutBase - Mutation spectra db (Db on mutants of several bacterial and mammalian genes) MutS - MutS family Neurotrophic factors NucleaRDB - Federated db on nuclear receptors P450 pages from Nelson's lab P450 - Directory of P450-containing systems Arabidopsis P450 Web site Drosophila P450 Web site IARC p53 db - IARC db of somatic p53 mutations PDZ domain - PDH/DHR domain WWW page PDE - Phosphodiesterases Peroxidases Plant Peroxidases Peptidases in SWISS-PROT - Nomenclature and index of peptidases in SWISS-PROT MEROPS - Peptidase db Prolysis - Proteases and inhibitors server Protein Degradation Resource PLACE - Plant cis-acting regulatory DNA elements db PlantCARE - Plant cis-acting regulatory DNA elements db PKR - Protein Kinase Resource PatBase - P-type ATPase db PPAR - Peroxisome Proliferator-Activated Receptor resource PPDB - Phosphoprotein db Proteoglycans Phytochromes - Computer analysis of phytochrome sequences RecA - RecA protein REBASE - Restriction enzymes and methylases db Restriction enzymes/methylases in SWISS-PROT - List of restriction enzymes and methylases in SWISS-PROT Ribosomal proteins in SWISS-PROT - Families and index of ribosomal proteins in SWISS-PROT Ribosomal proteins - Analysis of R proteins by Nikos Kyrpides RNase P - Ribonuclease P db Scorpion - Scorpion toxin db SPAD - Signaling pathway db CSNDB - Cell Signaling Networks db SRPDB - Signal Recognition Particle db SNF2 - SNF2 family TRR - Thyroid hormone receptors resource TRANSFAC - Transcription factors db TRANSPATH - Signal Transduction Browser Transport Classification System - from Milton Saier UDP Glucuronosyltransferases V BASE - Directory of human V gene sequences (Immunoglobulin germline variable region) VDRR - Vitamin D receptor resource International venom and toxin db WD-repeat - WD-repeat proteins family WIT - 'What is There' metabolic models db Wnt gene homepage WormPep - C.elegans proteins db YTPdb - Yeast Transport Protein db
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Post-translational modifications databases and resources
DSDBASE - Disulfide database (derived from 3D data) GlycoSuiteDB - Db of glycan structures O-GlycBase - O-glycosylated proteins db PhosphoBase - Phosphorylation sites db RESID - Db of Amino Acid Modifications Delta Mass - Db of mass of Post-Translational Modifications
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Phylogenetics databases and resources
TreeBASE - Relational db of phylogenetic information The Tree of life - Collection of WWW pages on phylogeny and biodiversity of organisms RDP - Ribosomal db Project ICB - Identification and Classification of Bacteria
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Microarray databases and resources
ArrayExpress - MicroArray informatics at the EBI ChipDB - Gene expression db ExpressDB - Yeast and E.coli RNA expression db GeneX - Gene Expression project GEO - Gene Expression Omnibus RAD - RNA abundance db SMD - Stanford microarray db
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Patents databases
DPD - DNA Patent db Ag Patents - Agricultural Biotechnology patents from the USDA   USPTO patent db - USA Patent and Trademark Office patent db Esp@cenet - Patent information database from the European Patent Office (worldwide coverage)
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References (bibliographic databases)
PubMed Medline server AGRICOLA - AGRICultural OnLine Access; ref. db from NAL Article@INIST - Scientific and Technical Information Institute articles and monographs db PRF/LITDB - Protein Research Foundation Literature db (Japan) Korean Journals Abstract db UnCoverWeb   Hydrogenase references db   SeqAnalRef - Sequence analysis bibliographic references
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Dictionaries, primers, courses, nomenclature, etc.
BioABACUS - Biotechnology ABbreviation and ACronym Uncovering Service BioTech's life science dictionary DCB - Dictionary of cell biology by Julian Dow   AAnP - IUPAC-IUBMB nomenclature for amino acids and peptides Amino acid properties - Physico and chemical information on amino acids Amino acids 2 - Another information page on amino acids (from Berlin Free Univ.) Delta Mass - Db of mass of Post-Translational Modifications Carbohydrates - IUPAC-IUBMB nomenclature for carbohydrates Genetic codes - List of non-standard genetic codes from NCBI Genetic code Viewer - Genetic code viewer at EBI Genes 2000 - Online version of Benjamin Lewin Genes textbook Glossary of Biochemistry and Molecular Biology - by David M. Glick Primer on molecular genetics - from the US Department of Energy Protease protocols - methods to cleave protein sequences Ion Source - Mass spectrometry resource Sequence similarity searches primer - from Keith Robison / Harvard Pedestrian guide to analysing sequence databases - from Burkhard Rost and Reinard Schneider Weight matrices for sequence similarity scoring - from David Wheeler / MBCR Biocomputing courses resource list - Syllabi for a variety of courses and tutorials on Bioinformatics (from VSNS BCD) Biocomputing tutorials - EMBnet Biocomputing tutorials BioComputing Hypertext Coursebook - from VSNS BCD BioActivity - Protein sequence and structure analysis: a practical guide Homology modelling course - from the EMBL Tutorial on secondary structure prediction - from Harry Mangalam / UC Irvine Introduction to Glycolysis - from Leeds University Molecular biology protocols - from NWFSC Molecular biology protocols - from MBS (Molecular Biology Shortcuts) Graphics Gallery - Access Excellence (Genentech) Biotechnology graphics gallery Abbreviations of chemical compounds List of nomenclature related references for proteins - from SWISS-PROT GO - Gene Ontology Consortium WWW site HUGO nomenclature committee JCBN - IUPAC-IUB Joint commission on Biochemical Nomenclature (JCBN) BIOSIS glossary of nomenclature terms in zoology   Nobel Foundation Website The Nobel prize Internet Archive   NCBI Taxonomy BIOSIS Codes of Nomenclature for the naming of organisms List of Bacterial Names with Standing in Nomenclature ISIS - International Species Information System Species 2000 - Project to provide in an electronic form the names and taxonomy of all known species
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Biological software and databases catalog servers
BioCatalog - The BioCatalog at EBI Yellow BAGI - Bio Access Guide to the Internet at Houston University Software library from Genamics.com DBCAT - Databases catalog at INFOBIOGEN
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Gateways (portals) to Life Sciences resources
Art's Biotechnology Resource Biofind - Biotechnology industry information, gossip and news Bioinformatik.de - Web directory for bioinformatics BioNetbook - Institut Pasteur gateway to biosites Bioplanet - The bioinformatics homepage BSL - BioScience links from Russia Biotaq.com BioTech BioView - Site for Biopharmaceutical jobs, news, information and resources GenomeWeb Highveld.com - Internet Directory of Biology and Biotechnology Genomics Website at Wiley Molecular Biology Gateway from Horizon Press LabVelocity - Resource for biotechnology and life science Macromol Online Network Science MBS - Molecular Biology Shortcuts Symbios, Inc. - Biotechnology and pharmaceutical career service The Genomics Center   Chemdex.com - Online reagent ordering resource
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Biological journals and publishers
Resources that links to journals home pages
SWISS-PROT journals list - Provides direct links to most biological journals home pages PubList.com - Internet Directory of Publications Biochemistry and Molecular Biology Journals - Jim Beasley page of biological journals Medical journals list from Joe Buenker Medical Journal Online - List of journals from the University of Texas Research Medical Library Journal links from the Singapore bioinformatics center Journal index from Genamics.com Journal index from Horizon Scientific Press Mednav.com clinical journals list Mednav.com basic research journals list HUM-MOLGEN - HUM-MOLGEN communication forum home page for journals TOC MJF - Medical Journal Finder Highwire Press links to top Science Journals Medline full text lists - List of journals in Medline with Web sites   ChemConnect list of chemical journals   ISI Journal lists - Institute for Scientific Information list of journals ISSN - International Standard Serial Number organization
Publishers
AACR - American Association for Cancer Reasearch publications Allen Press, Inc. AMA - American Medical Association publications APS - American Physiological Society publications ACS - American Chemistry Society publications AP - Academic Press Alaken - Alaken, Inc. ASM - American Society of Microbiology publications Annual Reviews Arnold Publishers Bentham Science Publishers Bioline Publications BioScientifica Ltd Birkhauser Verlag Basel Blackwell Science BMJ - British Medical Journal publishing group Cell Press Churchill Livingstone COB - Company of Biologists Ltd CRC Press, Inc. CSHL - Cold Spring Harbor Laboratory Press CSIRO - CSIRO Publishing CUP - Cambridge University Press CJP - Carden Jennings Publishing Co. Ltd Marcel Dekker, Inc. Elsevier Science [Mirror in the US] FASEB publications G+B - Gordon and Breach Publishing Group HighWire Press Horizon Scientific Press Humana Press, Inc. IOS Press IR - Inter-Research Science Publisher Futura Publishing Company Karger AG KAP - Kluwer Academic Publishers Editrice Kurtis JL - John Libbey Eurotext LW&W - Lippincott Williams and Wilkins Mary Ann Liebert Masson Mosby Munksgaard IAPC NAUKA - NAUKA International Academic Publishing Company (Russia) NRC Research Press OUP - Oxford University Press Parthenon Publishing Group Pharmaceutical Press Portland Press Pulsus Group Inc. Rockfeller University Press Sage Science Press Sheffield Academic Press SGM - Society for General Microbiology publications SIR - SIR Publishing Slack, Inc. Spektrum Akademischer Verlag Springer-Verlag Swets & Zeitlinger T&F - Taylor & Francis Ltd [Mirror in the U.K.] Thieme University of Chicago Press Urban and Fischer Verlag