Collections and other things

   Collections and other things

• BioCat (Soft, Databases, W3 severs ..)
  • SRS - BIOCAT : (other libraries : BIOCAT) DKFZ (Germany), InfoBioGen (France)

• Biocatalysis/Biodegradation Database
  • University of Minnesota
  • MetaRouter (bioinformatics for bioremediation) Madrid (Spain)

• Chemical
  • ChemDB (a public database of small molecules and related chemoinformatics resources) Irvine (USA)
  • ChemFinder (USA)
  • CAS Registry (substance database with millions of structures and chemical names) CAS
  • CheBI (dictionary of 'small molecular entities') EBI (UK)
  • HaptenDB (a comprehensive database of haptens, carrier proteins and anti-hapten antibodies) Chandigarh (India)
  • NCI-3D Database NCI (USA)
  • Query Chem (a Google-powered web search combining text and chemical structures) Harvard (USA)
  • SuperHapten (a comprehensive database for small immunogenic compounds) Berlin (Germany)
  • SuperNatural (database of available natural compounds) Berlin (Germany)
  • Sweetdb (carbohydrate related data) DKFZ (Germany)
  • WebElements Periodic Table

• Culture collections, strains ...
  • Algae and Cyanobacteria (UTCC) Toronto (Canada)
  • Arabidopsis Stock Centre NASC (Nottingham UK)
  • Arabidopsis Information Resource TAIR
  • ATCC (USA)
  • BCCM Consortium (Bacterial, Plasmids, Fungi and Yeast collections) BCCM (Belgium)
  • Bean germplasm collection Bari
  • CABRI (Common Access to Biological Resources and Information) collections
  • Cell Line Data Base CLDB (Italy)
  • Collection of Bacterial Strains of Institut Pasteur (CIP) Pasteur (France)
  • German Collection of Microorganisms and Cell Cultures DSMZ (Germany)
  • Coriell Cell Repositories (cell cultures and DNA derived from the cell cultures) CCR (USA)
  • Cyanobacteria Culture Collection Pasteur (France)
  • Drosophila Strain Stock lists NIG (Japan)
  • European collections of cell cultures ECACC
  • E.coli Genetic Stock Center ECGSC (Yale)
  • European Bank of Glomales UKC (UK)
  • FGSC (Fungal Genetics Stock Center : Aspergillus, Fusarium, Neurospora, Sordaria) www (Kansas)
  • FlyStock FlyBase (USA)
  • Mouse and rat strains .. ANEX (Japan)
  • Mouse strain resources IMSR (UK)
  • Mouse strain stock list NIG (Japan)
  • National Genetic Resources (Plants, Animals, Microbes, Invertebrates) NGRP (USA)
  • Streptococcal Strains Collection Rockfeller (Lancefield Collection)
  • Transgenic and Targeted Mutant Animal Database ORNL (Oak Ridge)
  • World Data Center for Microorganisms WFCC-MIRCEN (Japan)
  
  
• Cloned Genes, vectors, libraries, oligonucleotides
  • Cloning Vector Collection NIG (Japan)
  • I.M.A.G.E. Consortium LLNL (20 different cDNA libraries, 100,000 human cDNA clones ..) (USA)
  • LLNL Human Single Chromosome Libraries LLNL (USA)
  • Molecular Probe Data Base MPDB (Italie)
  • Phabagen Collection Utrecht (The Netherlands)
  • Quantitative PCR primer database (QPPD) NCIFORF (USA)
  • RTPrimerDB (the real-time PCR primer and probe database) Ghent (Belgium)
  • SRS - VECTOR : at DKFZ (Germany), InfoBioGen (France)
  
  
• Drugs - Inhibitors
  • Antimicrobials and Drugs Balears
  • Antiretroviral Drug Interactions UCSF (USA)
  • Chemicals with pharmaceutical activity (3D) Oxford (UK)
  • Data from the DTP Human Tumor Cell Line Screen NCI (USA)
  • DrugBank (a comprehensive resource for in silico drug discovery and exploration) Alberta (Canada)
  • FAF-Drugs (free ADME/tox filtering of compound collections) Jussieu (French)
  • ORPHANET (base de données sur les maladies rares et les médicaments orphelins) InfoBioGen (in french)
  • Three-dimensional Drug Structure Databank NIH
  
  
• EC enzymes
  • BRENDA (Comprehensive Enzyme Information System) Cologne (Germany)
  • Catalytic Site Atlas (enzyme active sites and catalytic residues in enzymes of 3D structure) EBI (UK)
  • CutDB (a proteolytic event database) California (USA)
  • Expasy www
  • EMP project EMP
  • Thermodynamics of Enzyme-Catalyzed Reactions NIST
  • EzCatDB (the Enzyme Catalytic-mechanism Database) Tokyo (Japan)
  • IntEnz (Integrated relational Enzyme database) EBI (UK)
  • MACiE (a database of enzyme reaction mechanisms) Cambridge (UK)
  • SRS (linked libraries : ENZYME) : almost all the SRS [SRS] servers
  
  
• Restriction Enzymes
  • Johns Hopkins www
  • REDATA (search REBASE for enzyme name, references, suppliers etc.) Pasteur (France)
  • SRS (linked libraries : REBASE) : almost all the SRS [SRS] servers
  
  
• Hybridoma
  • Iowa DSHB (Developmental Studies Hybridoma Bank)
  
  
• Images
  • Atlas of Nucleic acid containing structure (XRay, NMR) Rutgers (USA)
  • Atlas of protein topology cartoons EBI (UK)
  • BBID (Biological Biochemical Image Database) NIA (USA)
  • Image Library of Biological Macromolecules Jena (Aminoacids, Nucleotides, ADN, ARN, Carbohydrates, Proteins)
  • The Swiss-3DImage Collection
  
  
• Ligands
  • Ligand Chemical Database for Enzyme Reaction via DBGET Kyoto (Japan)
  • Ligand Depot (a data warehouse for ligands bound to macromolecules) Rutgers (USA)
  
  
• Mass Spectrometry
  • Protein Mass Spectrometry Database Rockfeller (USA)
  
  
• Metabolites
  • Klotho biocheminfo
  
  
• Metabolic Pathways
  • Database of Quantitative Cellular Signaling Bangalore (India)
  • Biochemical Pathways Expasy (Boehringer Mannheim Biochemical Pathways maps)
  • EcoCyc (Encyclopedia of E. coli Genes and Metabolism) SRI (USA)
  • GMD@CSB.DB (the Golm Metabolome Database) Golm (Germany)
  • HinCyc (Encyclopedia of Haemophilus influenzae genes and metabolism) SRI (USA)
  • HMDB (the Human metabolome database) Edmonton (Canada)
  • Interactive graphic models of molecular and cellular pathways BioCarta
  • LIPID Metabolites And Pathways Strategy California (USA)
  • Metabolic Database (SoyBase) Yale (USA)
  • Metabolic pathfinding Bruxelles (Belgium)
  • Metacyc (Metabolic Pathway Database from over 150 different organisms) BioCyc (USA)
  • MetaPath Online (implementation of the network expansion algorithm) Berlin (Germany)
  • PathDB NCGR (USA)
  • PathFinder (Reconstruction and dynamic visualization of biochemical pathways) Bielefeld (Germany)
  • PathMiner (predicting metabolic pathways by heuristic search) Colorado (USA)
  • TRMP (database of therapeutically relevant multiple pathways) Singapore
  • VisANT 3.0 (for pathway visualization, editing, prediction and construction) Boston (USA)
  • Web-based kinetic modelling using JWS Online Matieland (South Africa)
  
  
• Network
  • BRITE (Biomolecular Relations in Information Transmission and Expression) GenomeNet (Japan)
  • Cytomer (relational database which lists physiological systems,organs and cell types) GBF (Germany)
  • Functional Networks in Living Organisms (metabolism, gene regulation, transport, signal transduction) Amaze (Belgium)
  • Reactome (a knowledgebase of biological processes) CSHL-EBI-GOC
  
  
• N.M.R..
  • BMRB BioMagResBank at University of Wisconsin-Madison (chemical shifts derived from proteins and peptides, reference data, amino acid sequence information, and data describing the source of the protein and the conditions used to study the protein), see also WWW Database Gateway to BioMagResBank (NIH)
  
  
• Pheromones
  • List of Sex Pheromones of Lepidoptera and Related Attractants Cornell (USA), see also SUAS
  • Pherobase HortResearch (New-Zealand)
  
  
• Plants
  • Crop Collections Maintained at National Clonal Germplasm Corvallis (USA)
  • International Culture Collection of Arbuscular and VA Mycorrhizal Fungi INVAM (Virginia)
  • Plant DataBase USDA (USA)
  • Plant Disease Handbook Texas
  • Plant Germplasm USDA (USA)
  • Plant Tissue Culture Information Exchange DHS (Texas)
  • World Weeds Database Oxford Forestry Institute
  
  
• Phylogeny
  • TreeBASE (A Database of Phylogenetic Knowledge) Harvard
  
  
• Polyacrylamide 2D gels ...
  • 2D Hunt (2-D electrophoresis web site finder) Expasy
  • Argonne Protein Mapping Group GELBANK (USA)
  • Cyano2Dbase KDRI (Japan)
  • ECO2DBase (NCBI repository) ftp
  • E.coli Proteomics Harvard (USA)
  • Expasy (Suisse) www
  • Heart 2-D Page Berlin (Germany)
  • Human 2-D Page Databases DCHGR (Denmark)
  • Joint Protein Structure Laboratory 2D-Gel JPSL (Database of Human Colorectal cell lines) (Australia)
  • LMBB (NCI) LMBB (Electrophoresis Databases - Lists)
  • PDD (Protein Disease DataBase) NIMH-NCI (USA)
  • Projects by the Protein Mapping Group (Methanococcus jannaschii, Pyrococcus furiosus, Deinococcus radiodurans, Shewanella oneidensis) Argone (USA)
  • Proteome 2D-Page database (Bacteria, Mouse) Berlin (Germany)
  • SIENA-2DPAGE Siena (Italia)
  • WORLD-2DPAGE index to federated 2-D PAGE database Expasy (Switzerland), more than 50 links
  
  
• Toxicity
  • Carcinogenic Potency Database Berkeley (USA)
  • Genotoxicity Database (SOS Chromotest and Mutatest) Pasteur (France)
  • Pesticide database PAN (USA)
  • TOXNET (a cluster of databases on toxicology, hazardous chemicals, and related areas) NIH (USA)
  
  
• Viruses
  • The Viral Genome resource NBCBI, see also Universal Virus Database ICTVdb
  • Virus Structure Resource EMBL (Fuller : Heidelberg)
  
  

• Biological Databases Index
  • Databases locally indexed and access to biological databases on different WAIS servers (WAIS) local, distant at InfoBioGen (Biblio, organism, cells, plasmids, GDB, OMIM, GENDIAG, GENINFO ...)

• Materials and Products for Biologists
  • BioSpace Synergistic Designs (USA)
  • BioSupplyNet CSHLP : Database of more than 15000 products from 1600 suppliers (USA)
  • Biotechnology Companies List HUM-MOLGEN (Germany)
  • Boehringer Products and TECH on line
  • GIBCO BRL Products and TECH on line
  • On line catalogs at BCM (Baylor)

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