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Series GSE52924 Query DataSets for GSE52924
Status Public on Jan 01, 2014
Title ChIP-seq analysis of chromatin state plasticity in primary human adult erythroid progenitor cells
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We report a computational approach for investigation of chromatin state plasticity. We applied this approach to investigate an ENCODE ChIP-seq dataset profiling the genome-wide distribution of H3K27me3 in 19 human cell lines. We found that high plasticity regions (HPRs) can be divided into two functionally and mechanistically distinct groups, consisting of CpG island proximal and distal regions. We identified cell-type specific regulators correlating with H3K27me3 patterns at distal HPRs in ENCODE cell lines. Furthermore, we applied this approach to investigate mechanisms for poised enhancer establishment in primary human erythroid precursors. We predicted and validated a previously unrecognized role of TAL1 in modulating H3K27me3 patterns through interaction with additional cofactors, such as GFI1B. Our integrative approach provides mechanistic insights into chromatin state plasticity and is broadly applicable to other epigenetic marks.
 
Overall design Analysis of genomic occupancy of H3K27me3, H3K27ac, GATA1, TAL1/SCL and GFI1B in primary adult human proerythroblasts by ChIP-seq.
 
Contributor(s) Pinello L, Xu J, Orkin SH, Yuan G
Citation(s) 24395799
Submission date Dec 03, 2013
Last update date May 15, 2019
Contact name Jian Xu
E-mail(s) Jian.Xu@UTSouthwestern.edu
Phone 214-648-6125
Organization name UT Southwestern Medical Center
Department Children's Research Institute
Street address 6000 Harry Hines Blvd. NL12.108B
City Dallas
State/province TX
ZIP/Postal code 75235
Country USA
 
Platforms (2)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL14761 Helicos HeliScope (Homo sapiens)
Samples (6)
GSM1278238 H3K27me3-A (ChIP-Seq)
GSM1278239 H3K27ac-A (ChIP-Seq)
GSM1278240 GATA1-A (ChIP-Seq)
Relations
BioProject PRJNA230472
SRA SRP033440

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE52924_RAW.tar 4.4 Gb (http)(custom) TAR (of BED, WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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