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Series GSE68964 Query DataSets for GSE68964
Status Public on Sep 17, 2015
Title Genome-wide binding of GATA1 and TAL1 determined at high resolution
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Erythroid development and differentiation from multiprogenitor cells to red blood cells requires precise transcriptional regulation. Key erythroid transcription factors, GATA1 and TAL1, co-operate, along with other proteins, to regulate many aspects of this process. How GATA1 and TAL1 are positionally organized with respect to each other and their cognate DNA binding site across the mouse genome remains unclear. We applied high resolution ChIP-exo to GATA1 and TAL1 to study their positional organization across the mouse genome during GATA1-dependent maturation. Two complementary methods, MultiGPS and peak-pairing, were used to determine high confidence binding locations by ChIP-exo. We identified ~10,000 GATA1 and ~15,000 TAL1 locations, which were essentially confirmed by ChIP-seq. Of these, ~4,000 locations were bound by both GATA1 and TAL1. About three-quarters of these were tightly linked (<40 bp away) to a partial E-box located 7-8 bp upstream of a WGATAA motif. Both TAL1 and GATA1 generated distinct characteristic ChIP-exo peaks around WGATAA motifs, that reflect on their positional arrangement within a complex. We show that TAL1 and GATA1 form a precisely organized complex at a compound motif consisting of a TG 7-8 bp upstream of a WGATAA motif across thousands of genomic locations.
Overall design Genome wide analysis of GATA1 and TAL1 in G1E and G1E-ER4 cells using ChIP-exo experiments
Contributor(s) Han GC, Vinayachandran V, Bataille AR, Park B, Chan-Salis KY, Keller CA, Long M, Mahony S, Hardison RC, Pugh BF
Citation(s) 26503782
Submission date May 17, 2015
Last update date May 15, 2019
Contact name Bongsoo Park
Phone 814-441-3861
Organization name Penn State University
Street address 453 North Frear Building
City University Park
State/province PA
ZIP/Postal code 16802
Country USA
Platforms (3)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL15907 AB 5500xl Genetic Analyzer (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (25)
GSM1689010 GATA1 G1E [Replicate 1]
GSM1689011 GATA1 G1E-ER4 0h [Replicate 1]
GSM1689012 GATA1 G1E-ER4 0h [Replicate 2]
BioProject PRJNA284235
SRA SRP058427

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
GSE68964_gata1_final_intersect.gff.gz 83.2 Kb (ftp)(http) GFF
GSE68964_gata1_multiGPS.gff.gz 103.3 Kb (ftp)(http) GFF
GSE68964_gata1_peakpair.gff.gz 260.8 Kb (ftp)(http) GFF
GSE68964_tal1_final_intersect.gff.gz 122.2 Kb (ftp)(http) GFF
GSE68964_tal1_multiGPS.gff.gz 141.9 Kb (ftp)(http) GFF
GSE68964_tal1_peakpair.gff.gz 345.2 Kb (ftp)(http) GFF
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Processed data are available on Series record
Raw data are available in SRA

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