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Direct Recruitment of Polycomb Repressive Complex 1 (PRC1) to Chromatin by Core Binding Transcription Factors (ChIP-Seq)

UID: 11245

Author(s): Yu, Ming, Mazor, Tali, Huang, Hui, Huang, Hsuan-Ting, Kathrein, Katie L., Woo, Andrew J., Chouinard, Candace R., Labadorf, Adam, Akie, Thomas E., Moran, Tyler E., Xie, Huafeng, Zacharek, Sima, Taniuchi, Ichiro, Roeder, Robert G., Kim, Carla F., Zon, Leonard I., Fraenkel, Ernest, Cantor, Alan B.

Description
Summary from GEO:

"Polycomb repressive complexes (PRCs) play key roles in developmental epigenetic regulation. Yet the mechanisms that target PRCs to specific loci in mammalian cells remain incompletely understood. In this study, we show that Bmi1, a core component of Polycomb Repressive Complex 1 (PRC1), binds directly to the Runx1/CBFbeta transcription factor complex. Genome-wide studies in megakaryocytic cells demonstrate considerable chromatin occupancy overlap between the PRC1 core component Ring1b and Runx1/CBFbeta and functional regulation of a significant fraction of commonly bound genes. Bmi1/Ring1b and Runx1/CBFbeta deficiency generate partial phenocopies of one another in vivo. We also show that Ring1b occupies key Runx1 binding sites in primary murine thymocytes and that this occurs via Polycomb Repressive Complex 2 (PRC2) independent mechanisms. Genetic depletion of Runx1 results in reduced Ring1b binding at these sites in vivo. These findings provide evidence for site-specific PRC1 chromatin recruitment by core binding transcription factors in mammalian cells."

Overall design from GEO:

"ChIP-seq against Runx1, CBFb and Ring1b in L8057 cells (induced & uninduced with biological replicates) and thymocytes from control and Runx1 KO mice"
Subject of Study
Mus musculus
Subject(s)
Binding sites
Chromatin Immunoprecipitation Sequencing
Polycomb-Group Proteins
Transcription Factors
Access via GEO


Accession #: GSE33653

Access via BioProject


Accession #: PRJNA154305

Access via SRA


Accession #: SRP009304

Access Restrictions
Free to All
Access Instructions
The NCBI Gene Expression Omnibus, BioProject, and SRA databases provide open access to these files.
Associated Publications
Samstein R, Arvey A, Josefowicz S, Peng X, Reynolds A, Sandstrom R, Neph S, Sabo P, Kim J, Liao W, Li M, Leslie C, Stamatoyannopoulos J, Rudensky A. Foxp3 exploits a pre-existent enhancer landscape for regulatory T cell lineage specification. Cell. 2012; 151(1):153-166.
Yu M, Mazor T, Huang H, Huang HT, Kathrein KL, Woo AJ, Chouinard CR, Labadorf A, Akie TE, Moran TB, Xie H, Zacharek S, Taniuchi I, Roeder RG, Kim CF, Zon LI, Fraenkel E, Cantor AB. Direct recruitment of polycomb repressive complex 1 to chromatin by core binding transcription factors. Mol Cell. 2012 Feb 10;45(3):330-43. PMID: 22325351; PMCID: PMC3278717.
Equipment Used
Illumina Genome Analyzer II

The Genome Analyzer supports a wide range of applications, including whole-genome and candidate region resequencing, transcriptome analysis, small RNA discovery, methylation profi ling, and protein-nucleic acid interaction analysis at a genome-wide scale.

Illumina HiSeq 2000

High throughput gene sequencing system

Dataset Format(s)
TAR, BED
Dataset Size
6.6 GB
Data Catalog Record Updated
2024-04-23