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Life Science Directory

(formerly known as Amos' WWW links page)

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3) Links to protein sequence, 3D structure and 2D-gel analytical tools are
provided on ExPASy's Proteomics tools page.
Quick jump to the following topics:

Protein db | 3D structure db | 2D-PAGE & MS db | DNA/RNA db | Carbohydrates db |

Species specific db | Human mutation db | Genes/proteins specific db | PTM db | Phylogenetics db |
Gene expression db | Patents | References | Dict., protocols & nomenclat. | Biol. soft. & db catalogs |
Gateways | Biol. journals & publishers | Biol. societies | Biocomputing servers | Biotech. companies |
Bioinformatics companies | Misc. medical ref. sites | Misc. scientific ref. sites

Protein related databases

• UniProt - the universal protein resource
• UniProt Knowledgebase - consists of UniProtKB/Swiss-Prot (high-level
annotation) and UniProtKB/TrEMBL (computer-annotated)
• PMD - Protein Mutant db
• InterPro - Integrated Resources of Proteins Domains and Functional Sites
• PROSITE - Database of protein families and domains
• BLOCKS - BLOCKS db
• Gene3D - Structural and Functional Annotation of Protein Families
• Panther - Functional classification system
• Pfam - Protein families db (HMM derived) [Mirrors at JFRC (USA), CCBB
(South Korea) Institute, UK, Karolinska Institutet (Sweden)]
• PIRSF - Protein classification system
• PRINTS - Protein Motif fingerprint db
• ProDom - Protein domain db (Automatically generated)
• PROTOMAP - An automatic hierarchical classification of UniProtKB/Swiss-Prot
and UniProtKB/TrEMBL proteins
• SBASE - SBASE domain db
• SMART - Simple Modular Architecture Research Tool
• Superfamily - Library of profile HMMs representing all proteins of known
structure
• STRING - Search Tool for the Retrieval of Interacting Genes/Proteins
• TIGRFAMs - TIGR protein families db
• BIND - Biomolecular Interaction Network Database
• DIP - Database of Interacting Proteins
• MINT - Molecular INTeraction database
• HPRD - Human Protein Reference Database
• IntAct
• BioGRID - General Repository for Interaction Dataset

• PPI - JCB Protein-Protein Interaction Website

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Protein 3D structure related databases
• PDB - Protein Data Bank
• 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]
• HCA - Hydrophobic Cluster Database
• Molecules To Go - Molecules To Go (formerly known as Molecules R Us),
browser for PDB
• BMM Domain Fishing - Biomolecular Modelling Laboratory (ICRF) protein
domain fishing
• 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
• DisProt - Database of Protein Disorder
• SWISS-3DIMAGE - 3D images of proteins and other biological macromolecules

• BioImage - Biological image db (contains imaging data on macromolecules)

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Proteomics databases and links
Gel-based data
• MIAPEGelDB - A public repository for MIAPE Gel electrophoresis documents
• WORLD-2DPAGE List - Links to known 2-D PAGE database servers, as well as
to 2-D PAGE related servers and services
• World-2DPAGE Repository - A public standards-compliant repository for gel-
based proteomics data published in the literature
• The World-2DPAGE Constellation - Promote and publish gel-based proteomics
data through the ExPASy server

• Proteomics Links page of the Swiss Proteomics Society

Mass spectrometry data
• GPMdb - Global Proteome Machine Database
• OPD - Open Proteomics Database
• PeptideAtlas - peptides identified in tandem mass spectrometry proteomics
experiments
• PRIDE - PRoteomics IDEntifications database

• Tranche - Peer-to-peer distributed file system

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Nucleotide and related 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)
• 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 (currently not working)
• PLACE - Plant cis-acting regulatory DNA elements db
• PlantCARE - Plant cis-acting regulatory DNA elements db
• smiRNAdb - Information about mammalian small RNAs
• ssu rRNA - Small ribosomal subunit at the European ribosomal RNA database
• lsu rRNA - Large ribosomal subunit at the European ribosomal RNA database
• 5S rRNA - 5S ribosomal RNA db
• greengenes - 16S rRNA gene database and workbench
• tmRNA Website
• tmRDB - tmRNA dB
• tRNA - tRNA compilation from the University of Bayreuth
• uRNA db
• RNA editing - RNA editing site
• RNAmod db - RNA modification db
• TelDB - Multimedia Telomere Resource
• MPDB - Molecular probe db

• VectorDB - Vector sequence db

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Carbohydrates resources
• FCCA - Forum Carbohydrates Coming of Age
• 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
• GeneLoc - Integrated map of the human genome (ex- UDB)
• 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
• 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 Protein Atlas - Displays the expression and localization of proteins in a
large variety of normal human tissues and cancer cells
• 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
• Chr 3 at DDBJ
• 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 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
• 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 Swiss-Prot list - Links to Swiss-Prot entries from human chromosome 15
• 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 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
• 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
• H-InvDB Database - Human gene db, with cDNA clones available from six high
throughput cDNA sequencing projects
• Human Chromosome1 Launchpad
• Human Chromosome2 Launchpad
• Human Chromosome3 Launchpad
• Human Chromosome4 Launchpad
• Human Chromosome5 Launchpad
• Human Chromosome6 Launchpad
• Human Chromosome7 Launchpad
• Human Chromosome8 Launchpad
• Human Chromosome9 Launchpad
• Human Chromosome10 Launchpad
• Human Chromosome11 Launchpad
• Human Chromosome12 Launchpad
• Human Chromosome13 Launchpad
• Human Chromosome14 Launchpad
• Human Chromosome15 Launchpad
• Human Chromosome16 Launchpad
• Human Chromosome17 Launchpad
• Human Chromosome18 Launchpad
• Human Chromosome19 Launchpad
• Human Chromosome20 Launchpad
• Human Chromosome21 Launchpad
• Human Chromosome22 Launchpad
• Human ChromosomeX Launchpad

• Human ChromosomeY Launchpad

Vertebrates
• OMIA - Online Mendelian Inheritance in Animals
• MGI - Mouse Genome Informatics (includes MGD)
• 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
• RGD - Rat genome db
• RatMAP - Rat genome db
• TIGR RGI - TIGR Rat Gene Index
• Rn Unigene - Rat transcripts in GenBank (EST clusters)
• BOVMAP - Bovine genome db (in France)
• DGP - Dog Genome Project
• ArkDB - Cat, Chicken, Cow, Deer, Horse, Pig, Quail, Sheep, Turkey genome
databases
• 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
• ArkDB - Sea Bass, Salmon genome databases
• ZFIN - Zebrafish Information Network

• Ensembl Zebrafish genome browser

Mitochondrion and chloroplast
• GOBASE - Organelle Genome Database
• MitoDat - Mendelian Inheritance and the Mitochondrion db (mitochondrial
nuclear gen

• 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
• BDGP - Berkeley Drosophila Genome Project
• FlyView - Drosophila image db
• Homophila - Human Disease to Drosophila gene db
• Mosquito Genomics
• AnoDB - Anopheles gambiae db

• Ensembl Mosquito genome browser

Invertebrates
• WormBase - C.elegans db [Mirror at Sanger]
• C.elegans WWW server - at University of Texas Southwestern
• C.elegans Mitochondrial Directory - Data on C.elegans genes for mitochondrial
proteins
• NEXTDB - The Nematode Expression Pattern DataBase
• C.elegans Swiss-Prot list - Links to C.elegans Swiss-Prot entries
• WormPep - C.elegans proteins db
• WorfDB - C. elegans ORFeome cloning project
• DictyBase - Dictyostelium discoideum db
• DictyDb - Dictyostelium discoideum db
• Dictyostelium Genome Sequencing project at BCM
• Cone shells Web site
• Parasite genomes db and resources
• 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
• 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

Plants
• NAL - AGIS - Access to many plant genome databases at the National Agricultural
Library
• Mendel - Plant gene nomenclature database from CPGN
• FLAGdb++ - Integrative database around plant genomes
• 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
• AMPL - Arabidopsis Membrane Protein Library
• Arabidopsis at PlaCe - Site with info on P450, glucosyltransferases, etc.
• Gramene - A comparative mapping resource for grains
• RGP - Rice Genome Research Program
• Oryzabase - Japanese rice genome db
• Rice genome project at Wisconsin
• Rice-research.org - Monsanto rice genome site
• TIGR OsGI - TIGR Rice Genome project
• BeanGenes - Beans genome db
• ChlamyDB - Chlamydomonas reinhardtii genome db
• CoffeeDNA - Coffee genomics web site
• CottonDB - Cotton genome db
• MaizeDb - Maize genome db
• Pisum sativum (pea) web site (in russian)
• TIGR Potato - TIGR Potato Functional Genomics project
• TIGR GmGI - TIGR Soybean Gene Index
• Snapdragon (A.majus) web site
• DragonDB - Snapdragon Database
• 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
• Genomic Exploration of the Hemiascomycete Yeasts
• FGI - Fungal genome initiative at the Broad Institute
• Fungal genome databases at MIPS
• Fungal genomes at the Sanger Institute
• 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
• Yeast snoRNA - Yeast small nucleolar RNAs db
• YTPdb - Yeast Transport Protein db
• YMPL - Yeast Membrane Protein Library
• Mitochondrial Proteome db
• YEASTGFP - Yeast GFP Fusion Localization db
• TRIPLES - TRansposon-Insertion Phenotypes, Localization, and Expression in
Saccharomyces
• YRC - Yeast Resource Center
• PROPHECY - PROfiling of PHEnotypic Characteristics in Yeast
• SCMD - Saccharomyces Cerevisiae Morphological db
• GPofYPF - Global Profiling of Yeast Protein Function
• Saccharomyces Genomes - Finding functional features in Saccharomyces
Genomes by phylogenetic footprinting
• Yeast Comparative Genomics
• S.pombe Swiss-Prot list - Links to S.pombe WWW sites and to Swiss-Prot entries
• GeneDB S.Pombe - Schizosaccharomyces pombe GeneDB
• S.pombe genome project
• Forsburg lab pombe pages
• AGD - Ashbya genome db
• Aspergillus nidulans db
• Aspergillus fumigatus Genome db
• Aspergillus web site
• C. albicans Swiss-Prot list - Links to C.albicans WWW sites and to Swiss-Prot
entries
• CGD - Candida Genome db
• C. albicans Swiss-Prot list - Links to C.albicans WWW sites and to Swiss-Prot
entries
• CGD - Candida Genome db
• CGD - Candida Genome db
• C. albicans physical map - Candida albicans server at the Univ. of Minnesota
• Candida albicans pages - Candida albicans at the NRC/BRI
• C.albicans genome annotation - Agabian Lab Web db
• CandidaDB - Candida albicans genome db
• Cryptococcus neoformans Genome Project
• Cryptococcus neoformans db - Candida Genome db
• CunicuList - Encephalitozoon cuniculi Genome db
• FGDB - Fusarium graminearum Genome db
• MNCDB - MIPS Neurospora crassa db
• Neurospora crassa db
• NGP - Neurospora crassa genome project at New Mexico
• Neurospora crassa Gene List
• MUMDB - MIPS Ustilago maydis db
• 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
• List of complete bacterial proteomes in Swiss-Prot (HAMAP)
• CBS - CBS Genome Atlas Database
• CMR - TIGR Comprehensive Microbial Ressource
• GIB - Genome information broker for Microbial genomes
• GeneQuiz
• GOLD Genomes On-line Database
• 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
• EchoBASE
• 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
• Regulon DB
• 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
• 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.stearothermophilus - Bacillus stearothermophilus strain 10 genome project
• 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
• C.jejuni - Campylobacter jejuni strain NCTC 11168 genome project
• 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
• Chromobacterium violaceum
• C.michiganensis Claviabacter michiganensis subsp. sepdonicus genome project at
Sanger Institute
• C.difficile - Clostridium difficile strain 630 genome project at Sanger Institute
• C.diphtheriae - Corynebacterium diphtheriae strain NCTC 13129 genome project
at Sanger Institute
• E.ruminantium - Ehrlichia ruminantium (formerly Cowdria ruminantium) genome
project at Sanger Institute
• DrDB - TIGR Deinococcus radiodurans strain R1 genome db
• 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
• 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
• 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 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
• P.marinus - Prochlorococcus marinus genome project
• P.aeruginosa project - Pseudomonas aeruginosa 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.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
• S.typhi - Salmonella typhi strain CT18 genome project at Sanger Institute
• S.typhimurium Swiss-Prot list - Links to S.typhimurium Swiss-Prot entries
• RhizoBase - Sinorhizobium loti genome project
• S.meliloti - Sinorhizobium meliloti 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
• TmDB - Thermotoga maritima genome db at TIGR
• TpDB - Treponema pallidum genome db at TIGR
• T.whipplei - Tropheryma whipplei genome project at Sanger Institute
• U.urealyticum - Ureaplasma urealyticum genome WWW site
• VcDB - Vibrio cholerae genome db at TIGR
• X.fastidiosa - Xylella fastidiosa genome WWW site
• 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
Archaea
• List of complete archaeal proteomes in Swiss-Prot (HAMAP)
• A.pernix - Aeropyrum pernix K1 genome db
• AfDB - Archaeoglobus fulgidus genome db at TIGR
• Halobacterium NRC-1 - Halobacterium strain NRC-1 genome project
• M.jannaschii Swiss-Prot list - Links to M.jannaschii Swiss-Prot entries
• MjDB - Methanococcus jannaschii genome db at TIGR
• Pyrococcus abyssi genome and re-annotation db

• 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
• ViralZone - Portal to viral UniProtKB/Swiss-Prot entries
• Adenoviruses web site
• HCVDB - Hepatitis C virus db
• HIV - HIV and related species db
• HPV - Human papillomaviruses db
• Picornavirus - Picornavirus home page and access to db
• VirOligo- virus-specific oligonucleotides database
• PhageBase
• Bacteriophage ecology group
• GOLD - Genomes On-line db

• DOGS - Database of genome sizes

Back to TOP
Human mutation databases/resources
• HGMD - Human Gene Mutation db
• SVD - EBI Sequence variation db
• HGVbase
• 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
• 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)
• CC_Mut_db The Congenital Cataract Mutation Database
• CD3Ebase - Human CD3E mutation db
• CD3Gbase - Human CD3G mutation db
• CD40Lbase - Human CD40 ligand mutation db
• CD3Gbase - Human CD3G mutation db
• CD40Lbase - Human CD40 ligand 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)
• KMbloodDB - Blood disease genes db
• KMbrainDB - Brain disease genes db
• KMcancerDB - Cancer disease genes db
• KMearDB - Ear disease genes db
• KMeyeDB - Eye disease genes db
• KMheartDB - Heart disease genes db
• KMmuscleDB - Muscle disease genes db
• KMsyndromeDB
• MaiDB (autoimmune)
• FVII mutation - Human Factor VII mutation db
• Haemophilia B mutation db- Factor IX
• G6PD - Human G6PD deficiency resource
• G6PDdb - Human G6PD mutation db
• GNAS1 - Human GNAS1 mutation db
• HbVar - Hemoglobin variants db
• Hereditary hearing loss homepage
• LDLR mutation - Human LDLR mutation db (Familial hypercholesterolemia)
• LHR - Human luteinizing hormone (LH) receptor mutation db
• NCF1base - Human NCF1 mutation db
• NCF2base - Human NCF2 mutation db
• Neuromuscular diseases web site
• NCL - Neuronal Ceroid Lipofuscinoses mutation db
• OCRL1 - OCRL1 mutation db (Lowe Syndrome)
• OTCase - Human ornithine transcarbamylase (OTCase) website
• Cytochrome P450 alleles nomenclature
• IARC TP53 mutation db - International Agency for Research on Cancer
• 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
• 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)

• X-ALD mutation - Human ABCD1 mutation db

Back to TOP
Gene(s)/protein(s) specific databases/resources
• Human ABC transporters
• ABCISSE - ABC systems : Information on Sequence Structure and Evolution
• ADAMTS - Apte lab ADAMTS and ADAMTSL resource
• Human albumin Web site
• Allergens in Swiss-Prot - Nomenclature and index of allergens in Swiss-Prot
• Allergen sequence db
• Allergome - A db of allergenic molecules
• SDAP - Structural database of allergenic proteins
• Alginate genes - Pseudomomonas alginate production genes
• Aminoacyl-tRNA synthetases in Swiss-Prot - List of aminoacyl-tRNA synthetases
in Swiss-Prot
• AARSDB - Aminoacyl-tRNA synthetases
• AARSDB - Aminoacyl-tRNA synthetases db from P.Dessen
• Androgen Receptor Gene Mutations Database
• AMSDb - Antimicrobial sequences db
• Antibody resource page - Links to antibody related Web resources
• AraC-XylS - AraC/xylS transcriptional regulator family db
• TFII - Basal transcription factors
• Blood group antigens in Swiss-Prot
• BRENDA - Db of enzyme functional data
• EF-hand CaBP - EF-hand calcium-binding proteins db
• 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)
• Chaperonin - Information on GroEL and GroES chaperonins
• cpnDB - A Chaperonin Database
• CSDBase - Cold shock domain db
• COPE - Cytokines On-line Pathfinder Encyclopedia
• 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
• EpoDB - Erythropoiesis gene expression db (Epo GED)
• ESTHER - Esterases and alpha/beta hydrolase enzymes
• Estrogen Receptor Resource
• Expansins web site
• Modules - Extracellular proteins modules (domains)
• FADPNR - FAD-dependent pyridine nucleotide oxidoreductases
• Flavodoxins
• FYVE finger domain
• Globin - Globin gene server
• Glucocorticoid Receptor Resource
• 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
• GPCRDB - G protein-coupled receptor db (7TM) at EMBL
• GRR - Glucocorticoid receptor resource
• Arabidopsis Glucosyltransferases Web site
• GnRH - Gonadotropin-releasing hormones (GnRH) family
• Histone - Histones db
• HIVdb - HIV protease db
• HORDE - Human Olfactory Receptor Data Exploratorium
• Hox proteins in Swiss-Prot - Vertebrate homeotic Hox proteins: nomenclature and
index of Swiss-Prot entries
• IMGT - ImMunoGeneTics db [Mirror at EBI]
• InBase - Inteins db from the New England Biolabs
• Integrins
• Initiation factors in Swiss-Prot - List and index of translation initiation factors in
Swiss-Prot
• KEGG - Kyoto Encyclopedia of Genes and Genomes
• Klotho - Biochemical compounds declarative db
• LGIC - Ligand Gated Ion Channel subunit db
• LED - Lipase Engineering Database
• MDB - Metalloprotein Site Database and Browser
• Mitochondrial carriers pages from Nelson's lab
• Mutator - Transposases, Mutator family
• MutS - MutS family
• Neurotrophic factors
• NPD - Nuclear Protein db
• NucleaRDB - Federated db on nuclear receptors
• P450 pages from Nelson's lab
• P450 - Directory of P450-containing systems
• Arabidopsis P450 Web site
• IARC p53 db - IARC db of somatic p53 mutations
• PDE - Phosphodiesterases
• Plant Peroxidases
• Peptidases in Swiss-Prot - Nomenclature and index of peptidases in Swiss-Prot
• MEROPS - Peptidase db
• PLACE - Plant cis-acting regulatory DNA elements db
• KinBase
• PKR - Protein Kinase Resource
• PatBase - P-type ATPase db
• PPAR - Peroxisome Proliferator-Activated Receptor resource
• Proteoglycans
• Phytochromes - Computer analysis of phytochrome sequences
• PUMA2 - Evolutionary Analysis of Metabolism
• Reactome - a curated knowledgebase of biological pathways
• 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
• RNase P - Ribonuclease P db
• SABIO Reaction Kinetics Database
• SPAD - Signaling pathway db
• SRPDB - Signal Recognition Particle db
• SNF2 - SNF2 family
• TRANSFAC - Transcription factors db
• TRANSPATH - Signal Transduction Browser
• TC-DB - Transport Classification System from Milton Saier
• VDR - Vitamin D Nuclear Receptor
• WD-repeat - WD-repeat proteins family
• Wnt gene homepage
• WormPep - C.elegans proteins db
• YTPdb - Yeast Transport Protein db
• Conotoxins - Information on conotoxins from a Web site on cone shells
• International venom and toxin db
• Scorpion - Scorpion toxin db

• Snake - Snake toxin db

Back to TOP
Post-translational modifications databases and resources
• DSDBASE - Disulfide database (derived from 3D data)
• GlycoSuiteDB - Db of glycan structures
• LIPID MAPS - LIPID Metabolites And Pathways Strategy
• GlycateBase - Database of glycation data for epsilon amino groups of lysines
• O-GlycBase - O-glycosylated proteins db
• PhosphoBase - Phosphorylation sites db
• Phosphorylation site db - Bacterial and archaeal phosphorylation sites resource
• PhosphoSite - Db of phosphorylation sites in human and mouse proteomes
• DOLOP Db of bacterial lipoproteins
• UbiProt - Db of ubiquitylated proteins
• RESID - Db of Amino Acid Modifications
• Delta Mass - Db of mass of Post-Translational Modifications
Back to TOP
Phylogenetics and taxonomy databases & resources
• COG and KOG - Phylogenetic classification of proteins encoded in complete
genomes
• eggNog - Automated construction and annotation of orthologous groups of genes
• EGO - Eukaryotic Gene Orthologs
• Ensembl Compara - Genome-wide species comparisons
• HOGENOM - Homologous Sequences in Complete Genomes Database
• HOVERGEN - Homologous Vetebrate Genes Database
• InParanoid - Eukaryotic ortholog groups
• KO - KEGG Orthology:
• Metazome - Phylogenomic analysis of metazoan gene families
• Optic - Orthologous and paralogous transcripts in clades
• OMA - Orthologs Matrix Project (OMA)
• OrthoDB Hierarchical catalog of eukaryotic orthologs
• OrthoMCL DB Ortholog grouping for protein sequences from multiple genomes
• PhylomeDB - Database for phylomes (collections of phylogenetic trees for all
proteins encoded in a given genome)
• P-POD - Princeton Protein Orthology Database with an emphasis on providing
information about disease-related genes
• Protein Clusters - NCBI collection of related protein sequences (clusters)
• PhyloFacts - Pre-calculated structural and phylogenomic analyses of protein
families and domains
• TreeFam - Tree families database of phylogenetic trees of animal genes
• CluSTr - Automatic classification of UniProtKB proteins into groups of related
proteins
• HomoloGene - Automated detection of homologs among the annotated genes of
several completely sequenced eukaryotic genomes
• ProtoNet - Classification of the proteins into hierarchical clusters
• NCBI Taxonomy Browser
• NEWT - UniProt Taxonomy Browser
• The Tree of life - Collection of WWW pages on phylogeny and biodiversity of
organisms

• TreeBASE - Relational db of phylogenetic information

Back to TOP
Gene expression databases and resources
• 4DXpress - a database for cross-species expression pattern comparisons
• ArrayExpress - MicroArray informatics at the EBI
• Bgee - Retrieve and compare gene expression patterns across species
• CleanEx - database of gene expression profiles
• ExpressDB - Yeast and E.coli RNA expression db
• GeneX - An open source Gene Expression database
• GEO - Gene Expression Omnibus
• RAD - RNA abundance db
• SMD - Stanford microarray db
• MILANO - Microarray Literature-based Annotation

• Genevestigator - a multi-organism, novel type of online meta-analysis tool for

gene expression
Back to TOP
Patents databases
• DPD - DNA Patent db
• USDA Agricultural Biotechnology Intellectual Property
• FindThatPatent
• FreePatentsOnline
• Germany Patent database - with full-text and one-click patent search
• Japanese Patents and Inventions
• USPTO patent db - USA Patent and Trademark Office patent db
• Esp@cenet - Patent information database from the European Patent Office
(worldwide coverage)
• Freepatentsonline - access to millions of patents

• WikiPatents - the largest database of patents open for public comment on the
internet
Back to TOP
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
• Korean Journals Abstract db

• SeqAnalRef - Sequence analysis bibliographic references

Back to TOP
Dictionaries, protocols, courses, nomenclature, etc.
• BioABACUS - Biotechnology ABbreviation and ACronym Uncovering Service
• Biology Reference
• BioTech's life science dictionary
• DCB - Dictionary of cell biology by Julian Dow
• AAnP - IUPAC-IUBMB nomenclature for amino acids and peptides
• 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 code Viewer - Genetic code viewer at EBI
• Glossary of Biochemistry and Molecular Biology - by David M. Glick
• Primer on molecular genetics - from the US Department of Energy
• 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)
• Quick Guides - EMBnet Quick guides
• BioComputing Hypertext Coursebook - from VSNS BCD
• BioActivity - Protein sequence and structure analysis: a practical guide
• Homology modelling course - from the EMBL
• Cold Spring Harbor Protocols
• Molecular Biology Protocols
• Molecular biology protocols - from MBS (Molecular Biology Shortcuts)
• 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)
• Nobel Foundation Website
• The Nobel prize Internet Archive
• NCBI Taxonomy
• 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
Back to TOP
Biological software and databases catalog servers
• CLC Free Workbench - A desktop program including a number of algorithms for
DNA, RNA, and protein analyses. Available for Linux, MacOS X and Windows
• CLC Protein Workbench - A desktop program including a number of advanced
algorithms for protein sequence analysis. Available for Linux, MacOS X and
Windows
• BioCatalog - The BioCatalog at EBI
• LIC Generator - A web-based software for Ligation Independent Cloning vector
and primer design
• Quantum Pharmaceuticals - Drug Discovery and Computational Chemistry
Software

• Software library from Genamics.com

Back to TOP
Gateways (portals) to Life Science resources
• Art's Biotechnology Resource
• Antibody Directory - A comprehensive portal for antibodies with a broad
collection of research antibodies available world over
• Biofind - Biotechnology industry information, gossip and news
• Bioinformatik.de - Web directory for bioinformatics
• BioNetbook - Institut Pasteur gateway to biosites
• Bioplanet - The bioinformatics homepage
• BIOPPS - Science & Technology Biocluster de Mexico
• BSL - BioScience links from Russia
• Biotaq.com
• BioTech
• BioView - Site for Biopharmaceutical jobs, news, information and resources
• DATAbiotech - A portal dedicated to the biotech and pharmaceutical world.
• Enzyme Directory - An exclusive portal for Enzymes, Substrates, Inhibitors and
Recombinant proteins.
• ExactAntigen.com - a curated database of antibody products
• Genomics Directory
• Biosyn Gizmo - bundle of databases (siRNA, protein, peptide antigen) and tools

• HAGR - The Human Aging Genomic Resources

• Highveld.com - Internet Directory of Biology and Biotechnology
• Ion Channel Media Group
• LabAction - Biology video sharing site
• LabVelocity - Resource for biotechnology and life science
• Microbiologyprocedure.com - Providing information on Microbiology basics,
techniques, procedures, methods, applications and diseases
• Molecular Biology Gateway from Horizon Press
• Molecular Station - Molecular Biology Protocols and Bioinformatics
• Network Science
• Peptide Guide
• PharmaOpportunities - Pharmaceutical Jobs from Pharmaopportunities
• Protein Web - Everything Protein, from 20 Essential Amino Acids to Whey protein
Vs Soya protein
• Proteomics Research
• ReNaBI - French bioinformatics platforms network
• SIPHS - Question & Answer System for Life Sciences Researchers
• StrainInfo.net - Navigating microbial space
• Swiss Life Sciences database
• The Peptide Resource Page - your complet guide to peptide research and suppliers

• The Genomics Center

Back to TOP
Biological journals and publishers
Resources linking to journals home pages
• Swiss-Prot journals list - Provides direct links to most biological journals home
pages
• PubList.com - Internet Directory of Publications
• e-journals.org - Electronic journals directory
• Medical Journal Online - List of journals from the University of Texas Research
Medical Library
• Journal index from Genamics.com
• Journal index from Horizon Scientific Press
• HUM-MOLGEN - HUM-MOLGEN communication forum home page for
journals TOC
• Highwire Press links to top Science Journals
• Medline full text lists - List of journals in Medline with Web sites

• ISSN - International Standard Serial Number organization

Publishers
• Allen Press, Inc.
• AMA - American Medical Association publications
• ACS - American Chemistry Society publications
• AP - Academic Press
• Alaken - Alaken, Inc.
• ASM - American Society of Microbiology publications
• Annual Reviews
• Arnold Publishers
• BioMed Central - The Open Access Publisher
• Bio-IT World - Technology for the Life Sciences
• 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
• 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
• Editrice Kurtis
• JL - John Libbey Eurotext
• LW&W - Lippincott Williams and Wilkins
• Martin Dunitz Publishers
• 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
• SGM - Society for General Microbiology publications
• SIR - SIR Publishing
• Slack, Inc.
• Springer
• T&F - Taylor & Francis Ltd [Mirror in the U.K.]
• Thieme
• University of Chicago Press
• Urban and Fischer Verlag
• VSP - VSP International Science Publishers
• VZN - Verlag der Zeitschrift fur Naturforschung
• W de G - Walter de Gruyter and Co.
• WBS - W.B. Saunders Co.
• Wiley - John Wiley and Sons [Mirror in the U.K.]

• Wiley-VCH
Bioinformatics journals and newsletters
• Bioinformatics
• Briefings in Bioinformatics
• ISB - In Silico Biology
• BioInformer - EBI's newsletter
• embnet.news - EMBnet's newsletter
• NCBI Newsletter
• PDB Quaterly Newsletter
• B6 - Bulletin d'information du Service d'Informatique Scientifique (Pasteur
Institute / FR)
• BioInform - Global Bioinformatics new service
• BITS - Bioinformatics Information Technology and Systems
Genomic newsletters
• Human Genome Project Information
• FGN - Fungal Genetics Newsletter
• Rice Genome Newsletter

• WBG - Worm Breeder's Gazette

Miscellaneous
• IJC - Internet Journal of Chemistry

• Plant Gene Register

Biotechnology trade journals
• BioCentury
• Biotech Industry Supplier Registry
• BioWorld Online
• Drug Discovery and Development

• GEN - Genetic Engineering News

General science journals
• Nature
• New Scientist
• La Recherche
• Science
• Scientific American
• The Scientist
• ScienceDaily Magazine
• Science News Online

• CNN Sci-Tech - CNN Science and Technology

Back to TOP
Some biological societies and organizations
• APS - American Peptide Society
• ASCB - The American Society for Cell Biology
• ASHG - American Society of Human Genetics
• ATCC - American Type Culture Collection
• Biochemical Society
• BSA - Botanical Society of America
• CSBMCB - Canadian Society of Biochemistry and Molecular and Cell Biology
• EFBF - European Federation of Biophysics
• EGF - European Genetics Foundation
• EMBO - European Molecular Biology Organization
• ESEB - European Society for Evolutionary Biology
• ESHG - European Society of Human Genetics
• FAOBMB - Federation of Asian and Oceanian Biochemists and Molecular
Biologists
• FASEB - Federation of American Societies for Experimental Biology
• FEBS - Federation of European Biochemistry Societies
• HUGO - HUman Genome Organization
• HUPO - HUman Proteome Organization
• IUBMB - International Union of Biochemistry and Molecular Biology
• IUPAC - International Union of Pure and Applied Chemistry
• MSA - Mycological Society of America
• PPI - Plasma Proteome Institute
• PRF - Protein Research Foundation
• SDB - Society for Developmental Biology
• SGM - Society for General Microbiology
• SICB - Society for Integrative and Comparative Biology
• DOI - Digital Object Identifier foundation
• BioJava Project - International association of developers of Java tools for
bioinformatics
• Bioperl Project - International association of developers of Perl tools for
bioinformatics
• Biopython Project - International association of developers of Python tools for
bioinformatics
• ISCB - International Society for Computational Biology

• OMG LSR - Object Management Group Life Science Research task force
Back to TOP
Biocomputing servers homepages
Europe
• EBI - European Bioinformatics Institute
• EMBnet - European Molecular Biology Network
• EMBL - EMBL Biocomputing unit
• SIB - Swiss Institute of Bioinformatics
• EMBnet CH - Switzerland EMBnet node
• ISREC - ISREC bioinformatics group (Lausanne / Swizerland)
• CBRG - Computational Biochemistry Research Group (Zurich / Switzerland)
• INFOBIOGEN - GIS INFOBIOGEN; France EMBnet node
• ABIM - Atelier BioInformatique (Marseille / FR)
• B3E - Bioinformatique/Biostatistique/Biomathematique/Epidemiologie (Paris /
FR)
• Genethon - Genethon (Evry / FR)
• GeneStream - Institut de Génétique Humaine (Montpellier / FR)
• GENOSCOPE - Centre National de Séquencage (Evry / FR)
• GenoStar - Consortium for the development of a bioinformatic platform
• IGS - Information Génétique et Structurale (Structural and Genetic Information
Laboratory) (Marseille / FR)
• IMPBIO - Informatique, Mathématiques, Physique en Biologie moléculaire
• Pasteur - Institut Pasteur (Paris / FR)
• PBIL - Pole Bio-informatique Lyonnais (Lyon / FR)
• EGOISt -Master professionnel de BioInforMatique de l'Université de Rouen
• Sanger - Sanger Centre (Hinxton / U.K.)
• BMM - Biomolecular Modelling laboratory at ICRF (London / U.K.)
• BSM - Biomolecular Structure and Modelling group at UCL (London / U.K.)
• Manchester - Manchester University Bioinformatics unit (U.K.)
• RIO - Roslin Institute Online (U.K.)
• GeniusNet - DKFZ Biocomputing Service Group; Germany EMBnet node
• GSF AG BIODV - Software Development for Molecular Biology at the GSF
Institut fuer Sauegetiergenetik
• GSC - Genome Sequencing Center (Iena / Germany)
• MDC:Bioinf - Department of Bionformatic of the Max Delbruck Center for
Molecular Medicine (Germany)
• MIPS - Munich Information Centre for Protein Sequences (Germany)
• PZR - Bioinformatics at the Proteome Center Rostock
• VSNS BCD - Virtual School of Natural Sciences Biocomputing Division from the
University of Bielefeld (Germany)
• BCC - Vienna University Department for Biocomputing; Austria EMBnet node
• BEN - Belgium EMBnet node
• CBS - Center for Biological Sequence Analysis (Technical University of
Denmark)
• CSC BioBox - CSC; Finland EMBnet node
• ABC - Agricultural Biotechnology Center (Budapest / Hungary)
• TELETHON ITALY
• CMBI - Center for Molecular and Biomolecular Bioinformatics; Netherland
EMBnet node
• BIO - Norway EMBnet node
• IBB - Institute of Biochemistry and Biophysics (Warsaw); Poland EMBnet node
• Pen - Portugal EMBnet Node
• Belozersky Institute - Belozersky Institute (Moscow); Russia EMBnet node
• MGS - Molecular Biological Server (Novosibirsk / Russia)
• CNB - Centro Nacional de Biotecnologia; Spain EMBnet node
• BMC - BioMedical Centre at Uppsala; Sweden EMBnet node
• KISAC - Karolinska Institute (KI) Sequence Analysis Computer
• LCB - Linnaeus Centre for Bioinformatics

• SBC - Stockholm Bioinformatics Center

USA and Canada
• NCBI - National Center for Biotechnology Information
• ABCC - Advanced Biomedical Computing Center at the NCI
• ACGT - Advanced Center for Genome Technology at the University of Oklahoma
• BCM HGC - Baylor College of Medicine Human Genome Center
• BDGP - Berkeley Drosophila Genome Project
• BioTech - BioTech biology/chemistry educational resource and research tool
• Biotechnology - National Agricultural Library - Biotechnology
• BMERC - Biomolecular Engineering Research Center
• BROAD Institute
• CBIL - Computational Biology and Informatics Laboratory at the University of
Pennsylvania
• CUBIC - Columbia University Bioinformatics Center
• IBC - Washington University Institute for Biomedical Computing
• JGI - Doe Joint Genome Institute
• NCGR - National Center for Genome Resources
• NIH - NIH molecular biology
• TIGR - The Institute for Genome Research
• UCLA - UCLA Bioinformatics Institute
• Biocomputing at Whitehead Institute for Biomedical Research
• CBR - Canadian Bioinformatics Resource (currently not working)

• CCB - Centre for Computational Biology at the Hospital for sick children
Asia
• APBioNet - Asia-Pacific Bioinformatics network
• BIC-JNU - Bioinformatics Center of Jawaharlal Nehru University
• BIDD - Bioinformatics & Drug Design group ( National University / Singapore)
• DIC - Bioinformatics Centre at the University of Pune
• Japanese GenomeNet
• NIG - National Institute of Genetics of Japan
• KDRI - Kazusa DNA Research Institute
• CBI - Peking Center of Bioinformatics; Chinese EMBnet node
• MICRO-NET - Microbial Information Network of China
• HKBIC - Hong Kong Bioinformatics Center
• BRIC - Biological Research Information Center (Korea)
• MGRC - Malaysian Genomics Resource Centre

• BIC - BioInformatics center of the National University of Singapore

Australia
• APBioNet - Asia-Pacific Bioinformatics network
• ANGIS - Australian National Genomic Information Service
• ANU - Australian National University Genomic Interactions group

• APAF - Australian Proteome Analysis Facility

Others
• HUJI - Hebrew University of Jerusalem genomic and bioinformatics server
• Weizmann Bioinfo/BCU - Weizmann Institute of Science Bioinformatics and
Biological Computing
• SANBI - South African BioInformatics Institute
• BDT - Base de Datos Tropical (Sao Paulo / Brazil)
• ICGEB - International Center for Genetic Engineering and Biotechnology (Trieste
/ Italy)
Back to TOP
Biotechnology and pharmaceutical companies
• Pharmaceutical Research and Manufacturers of America membership list
• Bioportfolio - Gateways to biobusiness
• 1st BASE Singapore
• 5 Prime, Inc.
• Actelion
• Addgene
• Affymetrix, Inc.
• AgricultureB2B.com - Biotechnology WWW Resources
• Airmid Pharmaceuticals - privately held pharmaceutical company based in
California.
• ALEXIS Biochemicals
• Amgen
• Antibodies online
• ARIAD Pharmaceuticals, Inc.
• Arpida
• AstraZeneca Pharmaceuticals
• Atheris Laboratories
• Aurora Fine Chemicals
• Basilea
• Bayer
• Biacore Int. AB
• Bio Balance, Inc.
• Bio-Synthesis Inc
• Biogen Idec
• BioImage
• BioLaboratorio
• Bio-Rad Laboratories, Inc.
• Biosci Register - The Online Biotech Buyer's Guide
• BioSystematica
• BioVisioN GmbH
• BTC - BioSpecifics Technology Co.
• Caprion, Inc.
• Carbosynth - offering 2500 carbohydrates and nucleosides
• Celera Genomics Co.
• Cellectis SA
• CST - Cell Signalling Technology
• Cell Tech
• CellZome AG
• Centocor, Inc.
• Ciphergen Biosystems, Inc.
• Clontech Laboratories, Inc.
• Cognetix, Inc.
• Cooper Pharma
• CSL - CSL, Ltd.
• CuraGen Co.
• Cytos
• deCODE Genetics, Inc.
• Destiny Pharma Ltd.
• DNAVision
• Do-Coop - Drug Development
• Drug Development Technology
• Eli Lilly
• Emerald BioStructures, Inc.
• Encysive Pharmaceuticals
• Entelechon GmbH
• Entelos, Inc.
• EnviroLogix, Inc.
• Enzon, Inc.
• Epidauros Biotechnologie AG
• EVOTEC BioSystems AG
• Esbatech
• EPI - Exelixis Pharmaceuticals, Inc.
• Exclusive Chemistry - design and synthesis of organic compounds
• Fermentas AB
• Fine Chemicals - Fine chemicals at Spectrum Chemicals.
• G Biosciences - Proteomic products
• Genaissance Pharmaceuticals, Inc.
• GENEART - DNA engineering and processing
• Genencor International, Inc.
• Genentech, Inc.
• Genetics Institute
• GeneProt, Inc - Geneva Proteomics
• GE Healthcare
• Genome Express, SA
• Genomic Solutions, Inc.
• GenWay Biotech, Inc.
• Genzyme Co.
• Geron Co.
• GL Biochem (Shangai) Ltd
• GSK - GlaxoSmithKline
• Helix Biopharma Co.
• HGS - Human Genome Sciences, Inc.
• Hoechst GmbH - Sanofi-Aventis group
• HRI - Helix Research Institute, Inc.
• Hybrigenics SA
• Hyseq, Inc.
• HyTest - Cardiac markers, disease reagents, hormones and toxins, human proteins,
neuroscience products.
• Illumina, Inc.
• Incyte Pharmaceuticals, Inc.
• Integrated Genomics, Inc.
• International Stem Cell Corporation
• International Biosciences
• Invitrogen
• Johnson & Johnson
• Jova Solutions
• KuDOS Pharmaceutical Ltd
• LAROVA Biochemie GmbH
• Lee BioSolutions, Inc.
• LSB - Large Scale Biology Co.
• Lynx Therapeutics, Inc.
• Memorec - Medical Molecular Research Cologne GmbH
• Migenix
• Mitsui Chemicals America, Inc.
• MPI - Millennium Pharmaceuticals, Inc.
• Millipore Co.
• MOLOGEN GmbH
• MP Biomedicals - (formerly ICN Biomedicals & Qbiogene)
• MP Sciences
• Myriad Genetics, Inc.
• NEB - New England Biolabs, Inc.
• NGI - National Genetics Institute
• Nonlinear Dynamics Ltd
• Novartis
• Novo Nordisk
• Novozymes
• Ocimum Biosolutions - BioIT, Microarrays and contract research services
• Open Biosystems - part of Thermo Fisher Scientific
• Organic Chemistry Portal
• Pfizer, Inc.
• Pharmacopeia, Inc.
• Pharmingen
• Pharsight Co.
• POSEIDON PROBES - the life science researcher's newest source for fluorescent
probes
• PrimerDesign
• Prionics AG
• Promega Co.
• Proteome, Inc.
• Proteome Factory (German version)
• PSL - Proteome Systems Ltd
• ProZyme, Inc.
• QIAGEN GmbH
• R&D Chemicals - Rare Chemicals Database
• Repligen Co.
• Research Genetics, Inc.
• Roche Bioscience
• sanofi-aventis
• Sequenom Industrial Genomics
• Serono
• Shire Pharmaceuticals Group plc
• Sigma-Aldrich
• SKS Science
• Syngenta
• Synt:em
• The Gel Company
• The Genetics Company
• TopLab GmbH
• Transition Therapeutics
• Vernenium
• Vertex Pharmaceuticals
• WITA - Wittmann Institute of Technology and Analysis of Biomolecules GmbH
• Worthington Biochemical Co.
• Xenometrix GmbH
• Xerion Pharmaceuticals GmbH

• Zycos, Inc.
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Bioinformatics companies
• Aborygen
• Accelrys, Inc
• ACD - Advanced Chemistry Development, Inc.
• Acrendo Medical Office Softwware - highly customizable Electronic Medical
Record (EMR) software
• AlgoNomics NV
• ApoCom, Inc.
• Base4 Bioinformatics
• BIOBASE - Biologische Datenbanken GmbH
• Biodatabases.com - Biological databases division of Amita Corp.
• BioDiscovery, Inc.
• Biomedical Computing, Inc.
• BIOSIS
• BIOSOFT
• BioTools, Inc.
• Caesar Software LLC
• CLC bio - Provider of bioinformatics consulting, software and hardware
• Cognia Corporation, Inc.
• Compugen [USA | Israel]
• Computational Genetics Laboratory - Multifactor Dimensionality Reduction
(MDR) open source software
• LIMS By Core Informatics - software company focused on delivering fully
customized web-based Laboratory Information Management Systems (LIMS)
• DNA* - DNAStar
• DoubleTwist, Inc. (formerly Pangea Systems)
• DYNACOM Co., Ltd. - Customized and packaged software solutions
• EMR Software Experts, Inc.
• EraGen Biosciences
• FQS - FQS Poland Sp. z.o.o.
• Genamics
• GeneBio - Geneva Bioinformatics SA
• Gene Codes Co
• GeneData AG
• Geneformatics, Inc.
• Gene Logic, Inc.
• Genesifter - Web-based microarray analysis tool (Free trial accounts available)
• GENETYX - Software Development Co, GENETYX software
• Genologics
• Genome Quest
• Genomics Solutions, Inc
• GenoMining, SA
• Geospiza, Inc.
• GNS - Gene Network Sciences
• Golden Helix
• InforMax, Inc.
• InGenuity Systems, Inc.
• Inpharmatica
• IT.OMICS
• Janssen-genomics
• KineMatik
• Lambda-Plus SA
• LION Bioscience AG
• Matrix Science Ltd
• MDL - MDL Information Systems, Inc.
• MediGenomix GmbH
• Metaphorics LLC
• Microrite
• Neomorphic Software, Inc.
• Paracel, Inc.
• Partek, Inc. - Pattern Analysis and Recognition Technologies
• PREMIER Biosoft International
 • Progeny Software, LLC
• Proteome Consult - Consulting & Project Management for Protein Analysis &
Proteomics
• Redasoft
• Rishi Biotech Bio-IT company offering bioinformatics solutions to the Pharma,
Healthcare and Biotech industries
• Rosetta Biosoftware - Informatics solutions for life sciences research
• Sagitus Solutions
• ScienceFactory GmbH
• Scitech
• SGI - Silicon Graphics, Chemistry and Biological Sciences
• Spotfire, Inc.
• SBI - Structural Bioinformatics, Inc.
• SGX Pharmaceuticals
• Techcuriosity
• TimeLogic Corp. Bioinformatics Division
• Tripos Inc.
• VirtualChemistry

• WebGenetics
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Other links
Miscellaneous medical references sites
• European Organisation of Family Health Reseach
• HON - The Health On the Net foundation server
• Hardin MD - Hardin meta directory of Internet health sources
• Mednav.com - Guide to the Internet medicine
• MedWeb - Medical links site
• Online Cancer Guide - A comprehensive resource providing complete information
on various types of cancers
• FDA CDER - FDA Center for Drugs Evaluation and Research
• NLM - National Library of Medicine
• Apheresis News
• Cell Therapy News
• ReutersHealth - Reuters Medical News
• Biohealthmatics.com - career and job search networking site for biomedical
informatics professionals
• Healthopedia - Your Health Encyclopedia
• Intute (ex- OMNI - Organising Medical Networked Information)
• Medical software management
• MedicineNet - Medical Reference Site
• Medline Plus - NLM list of resources for health questions
• ORPHANET - Resource dealing with rare diseases and orphan drugs
• ORD - Office of Rare Diseases
• NMDWD - New Medicines in Development WebDatabase
• Prous Science - Medical and drug information provider
• TOXNET - Toxicology, hazardous chemicals and related areas db
• Visible Human at EPFL - EPFL server for the images of the "Visible Human"
NLM project

• Electronic Orange Book - FDA list of approved drug products

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Miscellaneous scientific references sites
• GPSDB - the Gene and Protein Synonyms DataBase
• Chemcyclopedia Online - Db of commercialy available chemicals
• Periodic table of the elements
• Interactive periodic table of the elements
• IDB - Internet Directory for Botany
• myScience.ch - the Swiss Portal for Research and Innovation
• SciCentral - Gateway to the best science directories
• Science News - Science-News.org Your Science and Technology News
Headquarters
• TheScientificWorld - Portal to science resources
• Science Clarified
• Library of Congress
• British Library
• Encyclopaedia Britannica and other resources
• Encarta - Microsoft encyclopedia
• A Web of on-line dictionaries - Links to many dictionaries in a variety of
languages
• Roget's Thesaurus
• Webster dictionary and thesaurus
• Dictionary of acronyms
• Gutenberg Project - Electronic full text version of classics
• World Science - Science News Website
• Wikipedia, The Science portal
• Database of Grants-in-Aid for Scientific Research in Japan [in Japanese]
• theScienceJobs.com

• Life Science - Jobs in Ireland

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