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| Status |
Public on Mar 28, 2012 |
| Title |
Depletion of RUNX1/ETO in t(8;21) AML cells leads to genome-wide changes in chromatin structure and transcription factor binding [expression array data] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
The t(8;21) translocation fuses the DNA binding domain of the hematopoietic master regulator RUNX1 to the ETO protein. The resultant RUNX1/ETO fusion protein is a leukemia-initiating transcription factor that interferes with RUNX1 function. The result of this interference is a block in differentiation and, finally, the development of acute myeloid leukemia (AML). To obtain insights into RUNX1/ETO-dependant alterations of the epigenetic landscape we measured genome-wide RUNX1- and RUNX1/ETO bound regions in t(8;21) cells and assessed to what extent the effects of RUNX1/ETO on the epigenome depend on its continued expression in established leukemic cells. To this end we determined dynamic alterations of histone acetylation, RNA Polymerase II binding and RUNX1 occupancy in the presence or absence of RUNX1/ETO using a knockdown approach. Combined global assessments of chromatin accessibility and kinetic gene expression data show that RUNX1/ETO controls the expression of important regulators of hematopoietic differentiation and self-renewal. We show that selective removal of RUNX1/ETO leads to a widespread reversal of epigenetic reprogramming and a genome-wide re-distribution of RUNX1 binding, resulting in the inhibition of leukemic proliferation and self-renewal and the induction of differentiation. This demonstrates that RUNX1/ETO represents a pivotal therapeutic target in AML.
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| Overall design |
Total RNA were obtained using 8 samples over four time courses (mismatch control and knock-down)
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| Contributor(s) |
Ptasinska A, Assi SA, Mannari D, James SR, Williamson D, Dunne J, Hoogenkamp M, Mengchu W, Care M, McNeill H, Cauchy P, Cullen M, Tooze R, Tenen DG, Young B, Cockerill PN, Westhead DR, Heidenreich O, Bonifer C |
| Citation(s) |
22343733 |
| Submission date |
May 11, 2011 |
| Last update date |
Aug 13, 2018 |
| Contact name |
Salam Adli Assi |
| E-mail(s) |
s.a.assi@bham.ac.uk
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| Organization name |
University of Birmingham
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| Department |
Institute for Cancer and Genomic Sciences
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| Street address |
IBR
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| City |
Birmingham |
| ZIP/Postal code |
B15 2TT |
| Country |
United Kingdom |
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| Platforms (1) |
| GPL10558 |
Illumina HumanHT-12 V4.0 expression beadchip |
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| Samples (8)
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| This SubSeries is part of SuperSeries: |
| GSE29225 |
Depletion of RUNX1/ETO in t(8;21) AML cells leads to genome-wide changes in chromatin structure and transcription factor binding |
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| Relations |
| BioProject |
PRJNA142967 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE29223_RAW.tar |
26.2 Mb |
(http)(custom) |
TAR |
| GSE29223_non-normalized.txt.gz |
1.5 Mb |
(ftp)(http) |
TXT |
| Processed data included within Sample table |
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