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Series GSE50534 Query DataSets for GSE50534
Status Public on Sep 12, 2016
Title Function of MLL4 in mouse embryonic stem cells and somatic cell reprogramming
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Enhancers control cell type-specific gene expression and direct cell fate transition. Enhancers are marked by H3K4me1/2. MLL4 (KMT2D) is a major enhancer H3K4me1/2 methyltransferase. Here we show in embryonic stem cells (ESCs), MLL4 associates with, but is dispensable for the maintenance of, active enhancers of ESC identity genes. As a result, MLL4 is dispensable for cell identity gene expression and self-renewal in ESCs. In contrast, MLL4 is essential for activation of de novo enhancers and induction of cell identity genes during ESC differentiation. Similarly, MLL4 is dispensable for maintaining fibroblast cell identity but is essential for reprogramming into induced pluripotent stem cells. These results indicate that while MLL4 is dispensable for maintaining cell identity, it controls cell fate transitions by orchestrating de novo enhancer activation.
 
Overall design MLL3-/-;MLL4flox/fox and MLL3-/-;MLL4-/- mouse embryonic stem cells(ESCs) are generated. ChIP-Seq of histone modificaitons, MLL4 and RNA-Seq are performed in undifferentiated ESCs and day4 differentiated embryoid bodies (D4EB).
MLL3-/-;MLL4flox/fox and MLL3-/-;MLL4-/- immortalized mouse embryonic fibroblasts(MEFs) are reprogrammed with lentiviral infection of OSKM. RNA-Seq are performed in MEFs and day20 programmed cells.
 
Contributor(s) Wang C, Xu S, Lee J, Lai B, Peng W, Ge K
Citation(s) 27698142
Submission date Sep 03, 2013
Last update date May 15, 2019
Contact name Kai Ge
E-mail(s) kai.ge@nih.gov
Phone 301-451-1998
Organization name NIH
Department NIDDK
Street address 10 Center Dr Rm 8N307
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platforms (2)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (36)
GSM1220832 H3K4me1 ChIP-Seq in MLL3-/-;MLL4flox/flox ESCs
GSM1220833 H3K4me1 ChIP-Seq in MLL3-/-;MLL4-/- ESCs
GSM1220834 H3K4me2 ChIP-Seq in MLL3-/-;MLL4flox/flox ESCs
Relations
BioProject PRJNA217907
SRA SRP029433

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
GSE50534_RAW.tar 219.8 Mb (http)(custom) TAR (of TXT, WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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