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Series GSE74055 Query DataSets for GSE74055
Status Public on Jan 09, 2018
Title Histone H3 lysine 4 monomethylation modulates longrange chromatin interactions at enhancers
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Other
Summary Long-range chromatin interactions between enhancers and promoters are essential for transcription of many developmentally controlled genes in mammals and other metazoans. Currently, the exact mechanisms that connect distal enhancers to their specific target promoters remain to be fully elucidated. Here, we show that the enhancer-specific histone H3 lysine 4 monomethylation (H3K4me1) and the histone methyltransferases MLL3 and MLL4 (MLL3/4) play an active role in this process. We demonstrate that in differentiating mouse embryonic stem cells, MLL3/4-dependent deposition of H3K4me1 at enhancers correlates with increased levels of chromatin interactions, whereas loss of this histone modification leads to reduced levels of chromatin interactions and defects in gene activation during differentiation. H3K4me1 facilitates recruitment of the Cohesin complex, a known regulator of chromatin organization, to chromatin in vitro and in vivo, providing a potential mechanism for MLL3/4 to promote chromatin interactions between enhancers and promoters. Taken together, our results support a role for MLL3/4-dependent H3K4me1 in orchestrating long-range chromatin interactions at enhancers in mammalian cells.
 
Overall design Examination of chromatin loop interactions in 3 cell types.
 
Contributor(s) Yan J, Ren B
Citation(s) 29313530
NIH grant(s)
Grant ID Grant title Affiliation Name
U54 DK107977 San Diego Center for 4D Nucleome Research Ludwig Institute for Cancer Research Ltd BING REN
Submission date Oct 15, 2015
Last update date May 15, 2019
Contact name Jian Yan
E-mail(s) jian.yan618@gmail.com
Organization name City University of Hong Kong
Department Biomedical Sciences
Lab Jian Yan
Street address 83 Tat Chee Ave
City Kowloon
ZIP/Postal code 999077
Country Hong Kong
 
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
Samples (153)
GSM1908888 ChIPseq-H3K4me1_E14_0831
GSM1908889 ChIPseq-H3K4me1_DKO_0831
GSM1908890 ChIPseq-Input_E14_0831
Relations
BioProject PRJNA298887
SRA SRP064855

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
GSE74055_RAW.tar 39.1 Gb (http)(custom) TAR (of BED, BW, FPKM_TRACKING, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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