JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles

A Mathelier, X Zhao, AW Zhang, F Parcy… - Nucleic acids …, 2014 - academic.oup.com
Nucleic acids research, 2014academic.oup.com
Abstract JASPAR (http://jaspar. genereg. net) is the largest open-access database of matrix-
based nucleotide profiles describing the binding preference of transcription factors from
multiple species. The fifth major release greatly expands the heart of JASPAR—the JASPAR
CORE subcollection, which contains curated, non-redundant profiles—with 135 new curated
profiles (74 in vertebrates, 8 in Drosophila melanogaster, 10 in Caenorhabditis elegans and
43 in Arabidopsis thaliana; a 30% increase in total) and 43 older updated profiles (36 in …
Abstract
JASPAR (http://jaspar.genereg.net) is the largest open-access database of matrix-based nucleotide profiles describing the binding preference of transcription factors from multiple species. The fifth major release greatly expands the heart of JASPAR—the JASPAR CORE subcollection, which contains curated, non-redundant profiles—with 135 new curated profiles (74 in vertebrates, 8 in Drosophila melanogaster, 10 in Caenorhabditis elegans and 43 in Arabidopsis thaliana; a 30% increase in total) and 43 older updated profiles (36 in vertebrates, 3 in D. melanogaster and 4 in A. thaliana; a 9% update in total). The new and updated profiles are mainly derived from published chromatin immunoprecipitation-seq experimental datasets. In addition, the web interface has been enhanced with advanced capabilities in browsing, searching and subsetting. Finally, the new JASPAR release is accompanied by a new BioPython package, a new R tool package and a new R/Bioconductor data package to facilitate access for both manual and automated methods.
Oxford University Press