Super-enhancer-mediated core regulatory circuitry in human cancer.

Computational and Structural Biotechnology Journal
Yuan JiangDe-Chen Lin

Abstract

Super-enhancers (SEs) are congregated enhancer clusters with high level of loading of transcription factors (TFs), cofactors and epigenetic modifications. Through direct co-occupancy at their own SEs as well as each other's, a small set of so called "master" TFs form interconnected core regulatory circuitry (CRCs) to orchestrate transcriptional programs in both normal and malignant cells. These master TFs can be predicted mathematically using epigenomic methods. In this Review, we summarize the identification of SEs and CRCs in cancer cells, the mechanisms by which master TFs and SEs cooperatively regulate cancer-type-specific expression programs, and the cancer-type- and subtype-specificity of CRC and the significance in cancer biology.

References

May 19, 2004·Biochemical and Biophysical Research Communications·Yin ChenGuifang Shen
Sep 13, 2005·Cell·Laurie A BoyerRichard A Young
Nov 22, 2008·Cold Spring Harbor Symposia on Quantitative Biology·M F Cole, R A Young
May 22, 2009·Nucleic Acids Research·Timothy L BaileyWilliam S Noble
Apr 8, 2010·Cell·André Nussenzweig, Michel C Nussenzweig
Sep 28, 2010·Nature·Panagis FilippakopoulosJames E Bradner
Sep 6, 2011·Cell·Jake E DelmoreConstantine S Mitsiades
Jun 23, 2012·Nature Reviews. Cancer·Anna C Belkina, Gerald V Denis
Oct 15, 2013·Cell·Denes HniszRichard A Young
Nov 29, 2013·Genes & Development·Junwei ShiChristopher R Vakoc
Mar 5, 2014·The Journal of Clinical Investigation·Hideo WatanabeAdam J Bass
Jul 22, 2014·Nature·Nicholas KwiatkowskiNathanael S Gray
Jun 18, 2015·Nature·Jason D BuenrostroWilliam J Greenleaf
Oct 7, 2015·Nucleic Acids Research·Aziz Khan, Xuegong Zhang
Nov 26, 2015·Nature Neuroscience·Jae-Yeol JooTae-Kyung Kim
Dec 22, 2015·Cell Stem Cell·Xiong JiRichard A Young
Jan 28, 2016·Nature·Charles Y LinPaul A Northcott
Feb 5, 2016·Genome Research·Violaine Saint-AndréRichard A Young
Feb 12, 2017·Cell·James E BradnerRichard A Young
Mar 25, 2017·Cell·Denes HniszPhillip A Sharp
Jun 27, 2017·Nature Genetics·Tim van GroningenRogier Versteeg
Jul 26, 2017·Nature Genetics·Valentina BoevaIsabelle Janoueix-Lerosey

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