Positions of predicted CTCF binding sites and unique A and B-repeats in the build hg19 of the Human Genome

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Supplementary materials for a publication entitled “Assessment of the CTCF Binding Sites and Repeat-Positions Upstream the Human H19 Gene“ Bina, M. January 2018, bioRxiv doi: 10.1101/250407

Version 1.0 - published on 25 Jan 2018 doi:10.4231/R74B2ZHD - cite this Archived on 05 Mar 2018

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Description

In placental mammals, a group of genes is imprinted to impart parent-of-origin-specific expression.  The human chromosomal band 11p15.5 encompasses an imprinted domain (H19 - IGF2) regulated by an Imprinting Control Region (ICR) at about 2 kb upstream of the H19 transcription start site (TSS).  This publication offers a file that lists genomic positions of reported A and B-repeat, and predicted CTCF binding sites, located upstream of the H19 TSS.  The file (Rpt_and_CTCF_positions_H19_ICR_hg19.bed) facilitates viewing listed positions with respect to landmarks displayed on the UCSC genome browser for the build hg19 of the human genome.  These landmarks include the position of genes, CpG islands, and the ENCODE data dealing with results of ChIP assays of histone marks and chromatin binding proteins including the transcription factor CTCF and two of the cohesin subunits (RAD21 and SMC3) known the contribute to the formation of chromatin boundaries.

You can obtain a copy of the bed file (in text format) by clicking on download, at the top right-side of this page.  Alternatively, click on (open repeat position and CTCF sites) to view the listing directly at the UCSC genome browser.  If you use the data in your research please cite the article entitled “Positions of predicted CTCF binding sites and unique A and B-repeats in the build hg19 of the Human Genome,” by Bina, M. (2019) bioRxiv doi: 10.1101/250407.

If you observe anomalies on this page, please contact bina@purdue.edu.

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