10.6084/m9.figshare.7087697.v1
Ilya E. Vorontsov
Ilya E.
Vorontsov
Alla D. Fedorova
Alla D.
Fedorova
Ivan S. Yevshin
Ivan S.
Yevshin
Ruslan N. Sharipov
Ruslan N.
Sharipov
Fedor A. Kolpakov
Fedor A.
Kolpakov
Vsevolod J. Makeev
Vsevolod J.
Makeev
Ivan V. Kulakovskiy
Ivan V.
Kulakovskiy
Human and mouse cistromes: genomic maps of putative cis-regulatory regions bound by transcription factors
Springer Nature
2018
human cistrome
mouse cistrome
transcription factors
transcription factor binding sites
ChIP-seq
cistrome
regulatory regions
target genes
human
mouse
Homo sapiens
Mus musculus
HOmo sapiens COmprehensive MOdel COllection
Gene Transcription Regulation Database
2018-10-17 15:22:24
Dataset
https://springernature.figshare.com/articles/dataset/Human_and_mouse_cistromes_genomic_maps_of_putative_cis-regulatory_regions_bound_by_transcription_factors/7087697
<div>This dataset consists of 1 <b>.xlsx</b> file and 8 <b>.zip</b> files:</div><div>- <b>cistrome_overview.xlsx</b> is an Excel spreadsheet containing the computational protocol of the cistrome aggregation in the 1st tab, and overviews of the resulting cistrome maps for mouse and human in the 2nd and 3rd tabs.</div><div>- <b>cistrome_hg19.zip</b>, <b>cistrome_hg38.zip</b>, <b>cistrome_mm9.zip </b>and <b>cistrome_mm10.zip</b> contain genome-wide cistome genomic maps for human (hg19 and hg38) and mouse (mm9 and mm10) genome assemblies. Each <b>.zip</b> file contains two folders: one for the base cistrome and another for the motif-annotated subset. The contents of these folders are <b>.bed</b> files.</div><div>- <b>cistrome2genes_hg19.zip</b>, <b>cistrome2genes_hg38.zip</b>, <b>cistrome2genes_mm9.zip</b> and <b>cistrome2genes_mm10.zip</b> contain gene-centric maps for the respective human and mouse genome assemblies, annotated with the transcription start sites (TSS) using the GENCODE reference data. The gene lists include only the genes with cistrome regions located not farther than 10kb from TSS. These are <b>.tsv</b> files.</div><div>- Inside each <b>.zip</b> file, there is a separate text (<b>.txt</b>) file with a technical description of contents and file naming conventions.</div><div><br></div><div>The related manuscript describes the objectives, sourcing and processing of the data provided here in greater detail. In short, the objective is to present general genome-wide maps of putative cis-regulatory regions bound by transcription factors for human and mouse cistromes. This is achieved through systematic analysis of ChIP-Seq data obtained from the Gene Transcription Regulation Database (http://gtrd.biouml.org) and sequence motifs from the HOmo sapiens COmprehensive MOdel COllection (HOCOMOCO: http://hocomoco.autosome.ru).</div>