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Series GSE24844 Query DataSets for GSE24844
Status Public on May 27, 2011
Title LSD1/KDM1 regulates the balance between self-renewal and differentiation in human embryonic stem cells.
Organism Homo sapiens
Experiment type Expression profiling by array
Genome binding/occupancy profiling by array
Summary Embryonic stem (ES) cells have the ability to differentiate into all the cell types of the adult organism. This unusual property has been proposed to emanate from a particular chromatin environment that simultaneously contains both H3K4 and H3K27 trimethylation marks at the regulatory regions of the developmental genes, which are thus poised for activation during differentiation following resolution of these “bivalent domains.” Our work identifies Lysine Specific Demethylase 1 (LSD1/AOF2/KDM1A) as a key histone modifier in the maintenance of pluripotency. We show that the knock-down of LSD1 causes the differentiation of human ES cells and the induction of key endo- and mesodermal genes marked with bivalent domains. This induction correlates with an increase in the levels of H3K4 methylation at the regulatory regions of these genes. ChIP on chip analysis reveals that in human ES cells LSD1 preferentially occupies the promoters of a subset of developmental genes that contain bivalent domains that are also occupied by OCT4 and NANOG. We conclude that LSD1 contributes to maintain a subset of developmental genes in human ES in a silenced state by maintaining the critical balance between H3K4 and H3K27 methylation at the regulatory regions of these genes.
 
Overall design Lsd1 binding sites in human embryonic stem cells have been determined by ChIP on chip, and gene expression changes upon Lsd1 knock down have been tracked by microarray profiling.
 
Contributor(s) Adamo A, Boué S, Sesé B, Castaño J, Barrero MJ, Izpisúa-Belmonte J
Citation(s) 21602794
Submission date Oct 20, 2010
Last update date Oct 11, 2016
Contact name Stephanie Boue
Organization name CMRB
Street address Dr Aiguader 88
City Barcelona
ZIP/Postal code 08003
Country Spain
 
Platforms (2)
GPL5082 [Hs_PromPR] Affymetrix Human Promoter 1.0R Array
GPL14550 Agilent-028004 SurePrint G3 Human GE 8x60K Microarray (Probe Name Version)
Samples (16)
GSM611218 Lsd1 vs. input
GSM689155 LSD1 knock-down ESC line - replicate 1
GSM689156 LSD1 knock-down ESC line - replicate 2
Relations
BioProject PRJNA132061

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
GSE24844_RAW.tar 372.8 Mb (http)(custom) TAR (of BED, CEL, CHP, TXT)
Processed data included within Sample table
Processed data provided as supplementary file

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