PscanR precomputed promoter backgrounds, version 2: JASPAR 2020 CORE
Authors/Creators
- 1. University of Milan, Dept of Bioscience
Description
Precomputed promoter-background score distributions for the PscanR transcription factor binding motif enrichment package, for the JASPAR 2020 CORE motif collection. The record holds 35 backgrounds: seven genome assemblies (hg38, hs1, mm10, mm39, dm6, sacCer3, TAIR9) times five promoter windows (200u_50d, 450u_50d, 500u_0d, 950u_50d, 1000u_0d, i.e. bp upstream/downstream of the TSS). Files are named <collection>_<assembly>_<window>_<annotation>.psbg2.txt and are tab-separated tables of per-motif background statistics. SHA256SUMS_J2020.txt lists the SHA-256 checksums.
The files are served individually to R users through Bioconductor's ExperimentHub by the PscanRBackgrounds package (https://github.com/Federico77z/PscanRBackgrounds) and read by PscanR (https://github.com/Federico77z/PscanR). The same files, together with the other JASPAR releases, are archived as a single ZIP in record 10.5281/zenodo.21821764.
Files
J2020_dm6_1000u_0d_UCSC.psbg2.txt
Files
(997.4 kB)
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Additional details
Related works
- Is derived from
- Journal article: 10.1093/nar/gkp464 (DOI)
- Journal article: 10.1093/nar/gkz1001 (DOI)
- Is part of
- Dataset: 10.5281/zenodo.21821764 (DOI)
- Is supplement to
- Software: https://github.com/Federico77z/PscanRBackgrounds (URL)
- Software: https://github.com/Federico77z/PscanR (URL)