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Series GSE129137 Query DataSets for GSE129137
Status Public on Apr 02, 2019
Title RNA-seq using RNA from KDM4 WT and Knockout haematopoietic stem cells
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The KDM4/JMJD2 are H3K9- and H3K36- specific demethylases, which are considered promising therapeutic targets for the treatment of acute myeloid leukemia (AML) harboring MLL-translocations. Here, we investigate the long-term effects of depleting KDM4 activity on normal hematopoiesis to probe potential side effects of continuous inhibition of these enzymes. Utilizing conditional Kdm4a/Kdm4b/Kdm4c triple-knockout mice we show that KDM4 activity is required for hematopoietic stem cell (HSC) maintenance in vivo. The knockout of the KDM4 demethylases leads to accumulation of H3K9me3 on transcription start sites and the corresponding downregulation of expression of several genes in hematopoietic stem cells. We show that two of these genes, Taf1b and Nom1, are essential for the maintenance of hematopoietic cells. Taken together, our results show that the KDM4 demethylases are required for the expression of genes essential for the long-term maintenance of normal hematopoiesis.
 
Overall design Haematopoietic stem cells were FACS sorted from WT or KDM4 knockout mice 2 weeks after induction of knockout. Total RNA was prepared and amplified using the Ovation
 
Contributor(s) Agger K, Helin K
Citation(s) 31434704
Submission date Apr 01, 2019
Last update date Aug 28, 2019
Contact name Karl Agger
E-mail(s) karl.agger@bric.ku.dk
Phone +4522832639
Organization name University of Copenhagen
Department BRIC
Street address Ole Maaloes Vej 5
City Copenhagen
ZIP/Postal code 2200
Country Denmark
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (8)
GSM3701148 HSC_WT mouse 1
GSM3701149 HSC_WT mouse 2
GSM3701150 HSC_WT mouse 3
This SubSeries is part of SuperSeries:
GSE129157 The KDM4/JMJD2 histone demethylases are required for hematopoietic stem cell maintenance
Relations
BioProject PRJNA530220
SRA SRP190031

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
GSE129137_RAW.tar 750.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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