The eukaryotic promoter database in its 30th year: focus on non-vertebrate organisms

Nucleic Acids Res. 2017 Jan 4;45(D1):D51-D55. doi: 10.1093/nar/gkw1069. Epub 2016 Nov 28.


We present an update of the Eukaryotic Promoter Database EPD (, more specifically on the EPDnew division, which contains comprehensive organisms-specific transcription start site (TSS) collections automatically derived from next generation sequencing (NGS) data. Thanks to the abundant release of new high-throughput transcript mapping data (CAGE, TSS-seq, GRO-cap) the database could be extended to plant and fungal species. We further report on the expansion of the mass genome annotation (MGA) repository containing promoter-relevant chromatin profiling data and on improvements for the EPD entry viewers. Finally, we present a new data access tool, ChIP-Extract, which enables computational biologists to extract diverse types of promoter-associated data in numerical table formats that are readily imported into statistical analysis platforms such as R.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Databases, Nucleic Acid*
  • Eukaryota / genetics
  • Fungi / genetics
  • Humans
  • Plants / genetics
  • Promoter Regions, Genetic*
  • Transcription Initiation Site