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Series GSE13313 Query DataSets for GSE13313
Status Public on Dec 15, 2008
Title Expression, ChIP-chip, and ChIP-Seq data from REH and SEM leukemia cell lines [Expression and ChIP-chip]
Organism Homo sapiens
Experiment type Expression profiling by array
Genome binding/occupancy profiling by genome tiling array
Summary MLL-fusion proteins are potent inducers of cancer in hematopoietic cells, where they are known to cause changes in global gene expression. How MLL-fusion proteins interact with the genome has not been established, so we have limited understanding of the pathway by which these proteins generate aberrant gene expression programs. Here we describe how the MLL-AF4 protein occupies the genome in human leukemia cells and its striking effects on chromatin states. We find that the MLL-AF4 fusion protein selectively occupies regions of the genome that contain developmental regulatory genes important for hematopoietic stem cell identity and self-renewal. These MLL-AF4 bound regions have grossly altered chromatin structure, with histone modifications catalyzed by Trithorax Group (TrxG) proteins and Dot1 extending across unusually large domains. This indicates that a key feature of MLL-associated leukemogenesis is aberrant targeting of chromatin modifiers to regions of the genome controlling hematopoietic development. Our results define the direct targets of the MLL-fusion protein, reveal the global role of epigenetic misregulation in leukemia, and identify new targets for therapeutic intervention in human cancer.

Keywords: cell type comparison
 
Overall design This dataset includes expression data for two replicates each of SEM and REH leukemia cell lines and ChIP-chip data targeting RNAP2, H3K4me3, H3K79me2, ENL, AF4-C, and MLL-N in SEM and REH leukemia cell lines.
Related ChIP-Seq data are provided in GEO Series GSE38338.
 
Contributor(s) Frampton GM
Citation(s) 19141473
Submission date Oct 23, 2008
Last update date Mar 25, 2019
Contact name Garrett M Frampton
E-mail(s) frampton@mit.edu
Organization name Whitehead Instute - MIT
Department Biology
Lab Richard Young
Street address 9 Cambridge Center
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
 
Platforms (2)
GPL570 [HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array
GPL7804 Agilent 95k Human Promoter v1 013590
Samples (16)
GSM336013 SEM_replicate_1
GSM336014 SEM_replicate_2
GSM336015 REH_replicate_1
Relations
BioProject PRJNA109897

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
GSE13313_RAW.tar 115.4 Mb (http)(custom) TAR (of CEL, GPR)
Processed data included within Sample table

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