Description
Genomic imprinting results in the expression of a subset of genes from either the maternal or paternal allele. This process is regulated by Imprinting Control Regions (ICRs), dispersed along the mammalian autosomal chromosomes. The ICRs often encompass a set of composite DNA elements consisting of the ZFP57 binding site (ZFBS) overlapping a subset of the MLL1 morphemes. These elements (ZFBS-Morph overlaps) usually occur as clusters of 2 or more in ICRs and germline Differentially Methylated Regions (gDMRs). To enhance detection of such clusters, we created plots for displaying the density of ZFBS-Morph overlaps along the build hg19 of the human genome.
This publication provides a file (in wig.gz format) for examining the density of ZFBS-Morph overlaps at the UCSC genome browser. Follow the steps listed below to obtain a copy of the file for creating a custom track at the browser.
- At the top right corner of this page, click on download bundle. The file is compressed.
- After download, decompress the file.
- You will find two files named:
- Readme.txt
- BINA_Dens_ZFBS-Morph_overlaps_hg19.wig.gz
- You will find two files named:
- To view the plots at the UCSC genome browser, go to https://genome.ucsc.edu/
- Select the build hg19 of the human genome.
- You will find a map displaying the default tracks.
- Under the map, click on "manage custom tracks”
- Afterward, click on "add custom track"
- Then click on choose file.
*On your computer, select the file named BINA_Dens_ZFBS-Morph_overlaps_hg19.wig.gz
- Subsequently, click on submit.
At the browser, the plot will display the density-peaks as brown vertical bars.
- NOTE: the track will indicate “no data” in regions that do not include any density-peak.
In evaluations, we found that reliable peaks encompassed 3 or more ZFBS-Morph overlaps. Peaks encompassing 2 overlaps could be true or false positive.
If you observe anomalies on this page, please contact bina@ purdue.edu
Cite this work
Researchers should cite this work as follows:
- Bina, M.; Wyss, P. J.; Song, X. C. (2019). Density of ZFBS-Morph overlaps in the build hg19 of the human genome. Purdue University Research Repository. doi:10.4231/PR3C-J556