Maintaining cell identity: PRC2-mediated regulation of transcription and cancer

I Comet, EM Riising, B Leblanc, K Helin - Nature Reviews Cancer, 2016 - nature.com
Enhancer of zeste homologue 2 (EZH2), the catalytic subunit of Polycomb repressive
complex 2 (PRC2), has attracted broad research attention in the past few years because of …

The Polycomb complex PRC2 and its mark in life

R Margueron, D Reinberg - Nature, 2011 - nature.com
Polycomb group proteins maintain the gene-expression pattern of different cells that is set
during early development by regulating chromatin structure. In mammals, two main …

Control of cell identity genes occurs in insulated neighborhoods in mammalian chromosomes

JM Dowen, ZP Fan, D Hnisz, G Ren, BJ Abraham… - Cell, 2014 - cell.com
The pluripotent state of embryonic stem cells (ESCs) is produced by active transcription of
genes that control cell identity and repression of genes encoding lineage-specifying …

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

SG Landt, GK Marinov, A Kundaje… - Genome …, 2012 - genome.cshlp.org
Chromatin immunoprecipitation (ChIP) followed by high-throughput DNA sequencing (ChIP-
seq) has become a valuable and widely used approach for mapping the genomic location of …

[HTML][HTML] Occupying chromatin: Polycomb mechanisms for getting to genomic targets, stopping transcriptional traffic, and staying put

JA Simon, RE Kingston - Molecular cell, 2013 - cell.com
Chromatin modification by Polycomb proteins provides an essential strategy for gene
silencing in higher eukaryotes. Polycomb repressive complexes (PRCs) silence key …

Reference-free cell mixture adjustments in analysis of DNA methylation data

EA Houseman, J Molitor, CJ Marsit - Bioinformatics, 2014 - academic.oup.com
Motivation: Recently there has been increasing interest in the effects of cell mixture on the
measurement of DNA methylation, specifically the extent to which small perturbations in cell …

High-resolution profiling of histone methylations in the human genome

A Barski, S Cuddapah, K Cui, TY Roh, DE Schones… - Cell, 2007 - cell.com
Histone modifications are implicated in influencing gene expression. We have generated
high-resolution maps for the genome-wide distribution of 20 histone lysine and arginine …

Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs

JL Rinn, M Kertesz, JK Wang, SL Squazzo, X Xu… - cell, 2007 - cell.com
Noncoding RNAs (ncRNA) participate in epigenetic regulation but are poorly understood.
Here we characterize the transcriptional landscape of the four human HOX loci at five base …

Genome-wide maps of chromatin state in pluripotent and lineage-committed cells

TS Mikkelsen, M Ku, DB Jaffe, B Issac, E Lieberman… - Nature, 2007 - nature.com
We report the application of single-molecule-based sequencing technology for high-
throughput profiling of histone modifications in mammalian cells. By obtaining over four …

Mechanisms of polycomb gene silencing: knowns and unknowns

JA Simon, RE Kingston - Nature reviews Molecular cell biology, 2009 - nature.com
Polycomb proteins form chromatin-modifying complexes that implement transcriptional
silencing in higher eukaryotes. Hundreds of genes are silenced by Polycomb proteins …