Biological databases
Introduction
There are around 500 public and commercial biological databases. These databases contain information about nucleotid sequences of genes or amino acid sequences of proteins. Furthermore information about function, structure, localisation on chromosome, clinical effects of mutations as well as similarities of biological sequences can be found.
With help of biological databases, the cooperation of biomolecules and the whole metabolism of an organism should be explained. This would facilitate the rational fight against diseases and the development of medical drugs.
The biological knowledge of databases is usually (locally) separated. This makes it difficult to ensure the consistency of information, which sometimes leads to low data quality of biological databases.
Most important public databases for molecular biology
(from www.kokocinski.net)
Primary Sequence DBs
- DDBJ (DNA DataBase of Japan)
- EMBL Nucleotide DB (European Molecular Biology Laboratory )
- GenBank (National Center for Biotechnology Information)
Meta-DBs
- euGenes (Univ. of Indiana)
- GeneCards (Weizmann Inst.)
- GenLoc / UDB (Weizmann Inst.)
- SOURCE (Univ. of Stanford)
Specialized DBs
- CGAP Cancer Genes (National Cancer Institute)
- Clone Registry Clone Collections (National Center for Biotechnology Information)
- DBGET H.sapiens (Univ. of Kyoto)
- DIP Interacting Proteins (Univ. of California)
- Ensembl Genome BrowserAnnotated Genomes (EMBL-EBI and Sanger Inst.)
- GDB (Human Genome Organization)
- I.M.A.G.E Clone Collections (Image Consortium)
- KEGG Functional Db (Univ. of Kyoto)
- LocusLink (National Center for Biotechnology Information)
- MGI Mouse Genome (Jackson Lab.)
- NCBI-UniGene (National Center for Biotechnology Information)
- OMIM Inherited Diseases (National Center for Biotechnology Information)
- PEDANT Protein Db (Forschungszentrum f. Umwelt & Gesundheit)
- List with SNP-Databases
- SWISS-PROT Protein Db (Swiss Institute of Bioinformatics)
Microarray-DBs
- ArrayExpress (European Bioinformatic Institute)
- Gene Expression Omnibus (National Center for Biotechnology Information)
- maxd (Univ. of Manchester)
- SMD (Univ. of Stanford)
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