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Series GSE28162 Query DataSets for GSE28162
Status Public on Jun 07, 2011
Title L3MBTL2 protein acts in concert with PcG protein mediated monoubiquitination of H2A to establish a repressive chromatin structure [ChIP-Seq data].
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Human MBT domain-containing protein L3MBTL2 was found to be an integral component of a protein complex that we termed Polycomb Repressive Complex 1-like 3 (PRC1L3) given the presence of the PcG proteins RING1, RING2 and PCGF6. L3MBTL2 binds chromatin in a histone modification-independent manner and is required for the repressive function of PRC1L3. PRC1L3 also contains E2F6 and CBX3, two factors with well‐established functions in transcriptional repression. Genome‐wide profiling identified several hundred genes that are simultaneously bound by L3MBTL2 and E2F6, preferentially around transcriptional start sites. Importantly, these genes are largely distinct from those targeted by other E2Fs or L3MBTL, another MBT‐domain containing protein that interacts with RB1. H3K27 or H3K9 methylation, two chromatin modifications implicated in gene silencing, are not present on all L3MBTL2 target genes. L3MBTL2-specific RNAi results in altered target gene expression patterns and affects the differentiation program of hematopoietic cells. Our data suggest that repression of transcription via chromatin modulation, reflective of PRC1 function, can be achieved by multiple players and does not necessarily require the presence of histone lysine methylation marks.
Overall design 7 total ChIP-seq datasets; one L3MBTL2 dataset done in duplicate in K562 cells; one E2F6 dataset done in duplicate in K562 cells; one H3K27me3 replicate dataset in K562 cells.
Contributor(s) Cao AR, Farnham PJ
Citation(s) 21596310
Submission date Mar 24, 2011
Last update date May 15, 2019
Contact name Philip Cayting
Organization name Stanford University
Department Genetics
Lab Snyder
Street address 1501 S California Ave
City Palo Alto
State/province CA
ZIP/Postal code 94304
Country USA
Platforms (2)
GPL9052 Illumina Genome Analyzer (Homo sapiens)
GPL9115 Illumina Genome Analyzer II (Homo sapiens)
Samples (9)
GSM467649 K562_Input
GSM607493 H3K9me3_K562_ChIP-seq_rep1
GSM608164 H3K4me3_K562_ChIP-seq_rep1
SRA SRP006562
BioProject PRJNA139505

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Supplementary file Size Download File type/resource
GSE28162_RAW.tar 3.4 Gb (http)(custom) TAR (of BAM, BIGWIG, TXT)
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Processed data provided as supplementary file
Raw data are available in SRA

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