EPDnew databases

EPDnew is serie of species-specific databases of experimentally validated promoters. At the moment 10 species are supported: 6 animals (H. sapiens, M. musculus, D. melanogaster, A. mellifera, C. elegans and D. rerio), 2 plants (A. thaliana and Z. mays) and 2 fungus (S. cerevisiae and S. pombe). Evidence comes from TSS-mapping from high-throughput expreriments such as CAGE and Oligocapping.

Collection accessibility

EPDnew databases are accessible in different ways: (1) using the input form in the header, searching for single gene symbol, gene description or ENSEMBL / RefSeq gene IDs; (2) using the search page for searching multiple genes symbols, ENSEMBL or RefSeq gene IDs; (3) using the download page for selecting promoters based on their genomic context (core promoter elements, CpG island, expression, ...) and downloading them in various formats or (4) through an ftp website for bulk download of the whole database in various formats (SGA, BED, ...).

Reference

A detailed description of the principles governing EPDnew can be found here:

EPD and EPDnew, high-quality promoter resources in the next-generation sequencing era. Dreos, R., Ambrosini, G., Périer, R., Bucher, P. Nucleic Acids Res. (2013) 41(Database issue):D157-64; PUBMED  23193273

Last update May 2017