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The Belgian Co-ordinated Collections of Microorganisms (BCCM) consist of four complementary research-based service culture collections: BCCM/IHEM biomedical fungi & yeasts BCCM/LMBP plasmids & DNA libraries BCCM/LMG bacteria BCCM/MUCL (agro)industrial fungi & yeasts. These collections are coordinated by a central team at the Belgian Federal Science Policy.
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This page gives access to the digitized version of the Roche Applied Science "Biochemical Pathways" wall chart. The electronic Biochemical Pathways allows the user to search the wall charts with keywords, set focus effects, activate filtering functions and zooming in on the details and elements of interest.
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BioCyc is a collection of 18,030 Pathway/Genome Databases, plus software tools for exploring them. Key aspects of BioCyc data: - Quality data curated from tens of thousands of publications, including curated databases for E. coli, B. subtilis, S. cerevisiae, and H. sapiens - Computationally predicted metabolic pathways and operons (bacteria and archaea) - Data integrated from other databases including gene essentiality, regulatory networks, protein features, and GO annotations
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The site offers a tool collection for Multiple Sequence Alignment. Multiple Sequence Alignment (MSA) is generally the alignment of three or more biological sequences (protein or nucleic acid) of similar length. From the output, homology can be inferred and the evolutionary relationships between the sequences studied.
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The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families.
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The CGSC Database of E.coli genetic information includes genotypes and reference information for the strains in the CGSC collection, gene names, properties, and linkage map, gene product information, and information on specific mutations. This collection includes only non-pathogenic strains of Escherichia coli: predominantly K-12 derivatives, but a few B strains. It includes cultures of wild-type contributed from a number of laboratories and a few thousand derivatives carrying one or up to 29 mutations from among 3500 mutations in (or included in deletions spanning) more than 1300 different loci. Some combinations were constructed particularly for mapping purposes and are still used for teaching and for rapid localization, some for manifestation of a particular phenotype, some strains for transferring a particular region or for complementation analysis. Some plasmids, e.g., the Clarke and Carbon collection, F-primes, a number of toolkit plasmids, and a few classic plasmids are included...
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Colibri provides a complete dataset of DNA and protein sequences derived from the paradigm strain E. coli K-12, linked to the relevant annotations and functional assignments. It allows one to easily browse through these data and retrieve information, using various criteria (gene names, location, keywords, etc.).
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The DNA Data Bank of Japan (DDBJ) is the sole nucleotide sequence data bank in Asia, which is officially certified to collect nucleotide sequences from researchers and to issue the internationally recognized accession number to data submitters.Since we exchange the collected data with EMBL-Bank/EBI; European Bioinformatics Institute and GenBank/NCBI; National Center for Biotechnology Information on a daily basis, the three data banks share virtually the same data at any given time. The virtually unified database is called "INSD; International Nucleotide Sequence Database". DDBJ collects sequence data mainly from Japanese researchers, but of course accepts data and issue the accession number to researchers in any other countries.
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ExPASy is the SIB Bioinformatics Resource Portal which provides access to scientific databases and software tools in different areas of life sciences including proteomics, genomics, phylogeny, systems biology, population genetics, transcriptomics etc.
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The Information System Genetic Resources (GENRES) offers information about rare tree species in Germany. These are based on the results of nationally surveys - supported by BMEL - using standardized methodologies to preserve genetic resources of rare and endangered tree species (Black Poplar, Common Yew, Downy Oak, Elm species, Field Maple, Green Alder and Grey Alder, Service Tree, Wild Apple, Wild Cherry, Wild Pear and Wild Service Tree). GENRES is hosted by the Information- and Coordination Centre for Biological Diversity at the BLE.
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Tools for in silico experiments with complete genomes. The list of genomes and associated data are updated shortly after their availability at NCBI.
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The Interactive Metabolic Pathways Map shows biochemical reactions of the main biological pathways in life in an overview. The "backbone" of the map is the Glycolytic Pathway followed by the TCA (Krebs) Cycle and the Respiratory Chain which together lead to the synthesis of ATP by ATP Synthase. Many biosynthetic and breakdown pathways of metabolism such as carbohydrates, amino acids, lipids are associated with this backbone and are differentiated by the use of color. Metabolites, enzymes, and selected pathways are searchable and interactive. Some 550 reactions are identified by their IUBMB Enzyme Commission (EC) numbers which are then indexed.
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KEGG is a database resource for understanding high-level functions and utilities of the biological system, such as the cell, the organism and the ecosystem, from molecular-level information, especially large-scale molecular datasets generated by genome sequencing and other high-throughput experimental technologies. Databases: - KEGG PATHWAY: Pathway information - KEGG GENES: Genomicinformation - KEGG LIGAND: Chemical information - KEGG BRITE: Binary relations and hierarchies etc.
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Entrez is the integrated, text-based search and retrieval system used at NCBI for the major databases, including PubMed, Nucleotide and Protein Sequences, Protein Structures, Complete Genomes, Taxonomy, and others.
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The Arabidopsis Information Resource (TAIR) maintains a database of genetic and molecular biology data for the model higher plant Arabidopsis thaliana. Data available from TAIR includes the complete genome sequence along with gene structure, gene product information, gene expression, DNA and seed stocks, genome maps, genetic and physical markers, publications, and information about the Arabidopsis research community. Gene product function data is updated every week from the latest published research literature and community data submissions. TAIR also provides extensive linkouts from the data pages to other Arabidopsis resources.
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