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Series GSE29130 Query DataSets for GSE29130
Status Public on Sep 13, 2011
Title Epigenetic profiling of hematopoietic stem cells and leukemia stem cells
Organisms Homo sapiens; Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The histone 3 lysine 79 (H3K79) methyltransferase Dot1l has been implicated in the development of leukemias bearing translocations that involve the Mixed Lineage Leukemia (MLL) gene. We identified the MLL-fusion targets in a murine MLL-AF9 leukemia model, and conducted epigenetic profiling for H3K79me2, H3K4me3, H3K27me3 and H3K36me3. Histone methylation patterns are highly abnormal on MLL-AF9 fusion target loci, defining a distinct epigenetic lesion involving H3K79. Conditional inactivation of Dot1l leads to specific down-regulation of direct MLL-AF9 targets and an MLL-translocation associated gene expression signature, while global transcription levels remain largely unaffected. This correlated with a greater sensitivity of leukemic blasts towards loss of Dot1l compared to normal hematopoietic cells. Development of in vivo leukemia was absolutely dependent on Dot1l.
Overall design Chromatin immunoprecipitation followed by Solexa sequencing for H3K4me3, H3K27me3, H3K36me3, H3K79me2 and biotinylated MLL-AF9 in HSC, GMP and LSC.
Contributor(s) Sinha A, Zhu N, Armstrong S
Citation(s) 21741597
Submission date May 06, 2011
Last update date May 15, 2019
Contact name Amit Sinha
Phone 617-582-7579
Organization name Dana-Farber Cancer Institute
Department Pediatric Oncology
Lab Armstrong Lab
Street address 44 Binney St
City Boston
State/province MA
ZIP/Postal code 02135
Country USA
Platforms (3)
GPL10999 Illumina Genome Analyzer IIx (Homo sapiens)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (15)
GSM721210 H3K79me2_MLL-AF9_huAML_ChIPSeq
GSM721211 H3K79me2_normal_karyotype_huAML_ChIPSeq
GSM721212 MLL-AF9_ChIPSeq
SRA SRP006724
BioProject PRJNA140445

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

Supplementary file Size Download File type/resource
GSE29130_RAW.tar 377.4 Mb (http)(custom) TAR (of WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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