EPD in its twentieth year: towards complete promoter coverage of selected model organisms
Autor: | Rouaïda Cavin Périer, Christoph D. Schmid, Viviane Praz, Philipp Bucher |
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Rok vydání: | 2006 |
Předmět: |
ved/biology.organism_classification_rank.species
Mammalian promoter database RNA polymerase II Genomics Computational biology History 21st Century Genome Article User-Computer Interface 03 medical and health sciences Computer Graphics Genetics Animals Humans Promoter Regions Genetic Model organism Gene 030304 developmental biology Internet 0303 health sciences biology ved/biology 030302 biochemistry & molecular biology Oryza Promoter Genome project History 20th Century Drosophila melanogaster biology.protein Databases Nucleic Acid |
Zdroj: | Nucleic Acids Research |
ISSN: | 1362-4962 0305-1048 |
Popis: | The Eukaryotic Promoter Database (EPD) is an annotated non-redundant collection of eukaryotic POL II promoters, experimentally defined by a transcription start site (TSS). Access to promoter sequences is provided by pointers to positions in the corresponding genomes. Promoter evidence comes from conventional TSS mapping experiments for individual genes, or, starting from release 73, from mass genome annotation projects. Subsets of promoter sequences with customized 5' and 3' extensions can be downloaded from the EPD website. The focus of current development efforts is to reach complete promoter coverage for important model organisms as soon as possible. To speed up this process, a new class of preliminary promoter entries has been introduced as of release 83, which requires less stringent admission criteria. As part of a continuous integration process, new web-based interfaces have been developed, which allow joint analysis of promoter sequences with other bioinformatics resources developed by our group, in particular programs offered by the Signal Search Analysis Server, and gene expression data stored in the CleanEx database. EPD can be accessed at http://www.epd.isb-sib.ch. |
Databáze: | OpenAIRE |
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