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Series GSE29180 Query DataSets for GSE29180
Status Public on Feb 09, 2012
Title ChIP-Seq of TAL1 and its regulatory partners in T-ALL cells
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The oncogenic transcription factor TAL1/SCL is aberrantly expressed in over 40% of cases of T-cell acute lymphoblastic leukemia (T-ALL), emphasizing its importance in the molecular pathogenesis of T-ALL. Here we identify the core transcriptional regulatory circuit controlled by TAL1 and its regulatory partners HEB, E2A, LMO1, LMO2, GATA3 and RUNX1 in T-ALL cells. We show that TAL1 forms an interconnected auto-regulatory loop with its partners, and that the TAL1 complex directly activates the MYB oncogene, forming a feed-forward positive regulatory loop that further promotes the TAL1-regulated oncogenic program. one of the cirtical downstream targets in this circuitry is the TRIB2 gene, which is oppositely regulated by TAL1 and HEB/E2A, and is essential for the survival of T-ALL cells.
Overall design Human T-ALL cells were cross-linked with formaldehyde for 20 min. DNA was enriched by chromatin immunoprecipitation (ChIP) and analyzed by Solexa sequencing. A sample of whole cell extract (WCE) was sequenced and used as the background to determine enrichment. ChIP was performed using an antibody against total TAL1 (Santa Cruz SC-12984), TCF12/HEB (Santa Cruz SC-357),TCF3/E2A (Santa Cruz SC-349X), LMO1 (Santa Cruz SC-10494), LMO2 (R&D AF2726),GATA3 (Santa Cruz SC-22206) and RUNX1 (Santa Cruz SC-8563). This represents the ChIP-seq portion of this dataset.
Contributor(s) Lawton LN, Young RA, Fan Z
Citation(s) 22897851
Submission date May 10, 2011
Last update date May 15, 2019
Contact name Richard A Young
Phone 617-258-5219
Organization name Whitehead Institute for Biomedical Research
Lab Young Lab
Street address 9 Cambridge Center
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
Platforms (1)
GPL9115 Illumina Genome Analyzer II (Homo sapiens)
Samples (10)
GSM722164 TAL1 ChIP-seq in Jurkat 1
GSM722165 TAL1 ChIP-seq in Jurkat 2
GSM722166 TCF12/HEB ChIP-seq in Jurkat
This SubSeries is part of SuperSeries:
GSE29181 Core transcriptional regulatory circuit controlled by the TAL1 complex in human T-cell acute lymphoblastic leukemia
SRA SRP011416
BioProject PRJNA142977

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
GSE29180_03232009_3140UAAXX_B7.wig.gz 4.6 Mb (ftp)(http) WIG
GSE29180_04102009_3139VAAXX_B5.wig.gz 839.8 Kb (ftp)(http) WIG
GSE29180_06172009_42A7LAAXX_B1.wig.gz 2.9 Mb (ftp)(http) WIG
GSE29180_10162009_42YHYAAXX_B1.wig.gz 5.9 Mb (ftp)(http) WIG
GSE29180_10162009_42YHYAAXX_B2.wig.gz 2.6 Mb (ftp)(http) WIG
GSE29180_RAW.tar 145.8 Mb (http)(custom) TAR (of YLF)
SRA Run SelectorHelp
Raw data not provided for this record
Processed data provided as supplementary file
Processed data are available on Series record
Raw data are available in SRA

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