Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities
Sven Heinz,Christopher Benner,Nathanael J. Spann,Eric Bertolino,Yin C. Lin,Peter Laslo,Jason X. Cheng,Cornelis Murre,Harinder Singh,Harinder Singh,Christopher K. Glass +10 more
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TLDR
It is demonstrated in macrophages and B cells that collaborative interactions of the common factor PU.1 with small sets of macrophage- or B cell lineage-determining transcription factors establish cell-specific binding sites that are associated with the majority of promoter-distal H3K4me1-marked genomic regions.About:
This article is published in Molecular Cell.The article was published on 2010-05-28 and is currently open access. It has received 9620 citations till now. The article focuses on the topics: Pioneer factor & General transcription factor.read more
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Dual regulatory switch through interactions of Tcf7l2/Tcf4 with stage-specific partners propels oligodendroglial maturation.
Chuntao Zhao,Yaqi Deng,Lei Liu,Kun Yu,Liguo Zhang,Haibo Wang,Xuelian He,Jincheng Wang,Changqing Lu,Laiman N. Wu,Qinjie Weng,Meng Mao,Jianrong Li,Johan H. van Es,Mei Xin,Lee Parry,Steven A. Goldman,Hans Clevers,Q. Richard Lu,Q. Richard Lu,Q. Richard Lu +20 more
TL;DR: This work identifies stage-specific co-regulators Kaiso and Sox10 that sequentially interact with Tcf7l2 to coordinate the switch at the transitions of differentiation initiation and maturation during oligodendrocyte development, and point to a previously unrecognized role of Tcf8l2 in control of cholesterol biosynthesis for CNS myelinogenesis.
Journal ArticleDOI
Fine-mapping and functional studies highlight potential causal variants for rheumatoid arthritis and type 1 diabetes
Harm-Jan Westra,Marta Martinez Bonet,Suna Onengut-Gumuscu,Annette Lee,Yang Luo,Nikola Teslovich,Jane Worthington,Javier Martin,Tom W J Huizinga,Lars Klareskog,Lars Klareskog,Solbritt Rantapää-Dahlqvist,Wei-Min Chen,Aaron R. Quinlan,Aaron R. Quinlan,John A. Todd,Steve Eyre,Peter A. Nigrovic,Peter A. Nigrovic,Peter K. Gregersen,Stephen S. Rich,Soumya Raychaudhuri +21 more
TL;DR: Fine-mapping and functional studies highlight potential causal risk variants for rheumatoid arthritis and type 1 diabetes, including missense variants at DNASE1L3, PTPN22, SH2B3, and TYK2, and noncoding variants at MEG3, CD28–CTLA4, and IL2RA.
Journal ArticleDOI
GATA3-dependent cellular reprogramming requires activation-domain dependent recruitment of a chromatin remodeler.
Motoki Takaku,Sara A. Grimm,Takashi Shimbo,Lalith Perera,Roberta Menafra,Hendrik G. Stunnenberg,Trevor K. Archer,Shinichi Machida,Hitoshi Kurumizaka,Paul A. Wade +9 more
TL;DR: The mechanistic basis by which GATA3 functions as a pioneer TF in a cellular reprogramming event relevant to breast cancer, the mesenchymal to epithelial transition (MET), is explored and a new conceptual framework for de novo enhancer establishment by a pioneerTF is provided.
Journal ArticleDOI
SMARCA4 loss is synthetic lethal with CDK4/6 inhibition in non-small cell lung cancer
Yibo Xue,Brian Meehan,Zheng Fu,Xue Qing D. Wang,Pierre Fiset,Ralf J. Rieker,Cameron Levins,Tim Kong,Xianbing Zhu,Geneviève Morin,Lashanda Skerritt,Esther Herpel,Sriram Venneti,Daniel Martinez,Alexander R. Judkins,Sungmi Jung,Sophie Camilleri-Broët,Anne V. Gonzalez,Marie-Christine Guiot,William W. Lockwood,Jonathan Spicer,Abbas Agaimy,William A. Pastor,Josée Dostie,Janusz Rak,William D. Foulkes,William D. Foulkes,Sidong Huang +27 more
TL;DR: It is shown that the absence of SMARCA4/2 reduces chromatin accessibility at the CCND1 locus, leading to a subsequent reduction in cyclin D1 expression, which promotes vulnerability of these cancers to CDK4/6 inhibition.
Journal ArticleDOI
The transcription factor Grainy head primes epithelial enhancers for spatiotemporal activation by displacing nucleosomes.
Jelle Jacobs,Mardelle Atkins,Kristofer Davie,Hana Imrichova,Lucia Romanelli,Valerie Christiaens,Gert Hulselmans,Delphine Potier,Jasper Wouters,Ibrahim Ihsan Taskiran,Giulia Paciello,Carmen Bravo González-Blas,Duygu Koldere,Sara Aibar,Georg Halder,Stein Aerts +15 more
TL;DR: It is found that SNPs affecting binding sites of the TF Grainy head (Grh) causally determine the accessibility of epithelial enhancers, and Grh is shown to function as a pioneer factor, displacing nucleosomes and paving the way for other transcription factors to activate enhancers.
References
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Journal ArticleDOI
High-resolution profiling of histone methylations in the human genome.
Artem Barski,Suresh Cuddapah,Kairong Cui,Tae-Young Roh,Dustin E. Schones,Zhibin Wang,Gang Wei,Iouri Chepelev,Keji Zhao +8 more
TL;DR: High-resolution maps for the genome-wide distribution of 20 histone lysine and arginine methylations as well as histone variant H2A.Z, RNA polymerase II, and the insulator binding protein CTCF across the human genome using the Solexa 1G sequencing technology are generated.
Journal ArticleDOI
Genome-wide maps of chromatin state in pluripotent and lineage-committed cells
Tarjei S. Mikkelsen,Manching Ku,Manching Ku,David B. Jaffe,Biju Issac,Biju Issac,Erez Lieberman Aiden,Erez Lieberman Aiden,Georgia Giannoukos,Pablo Alvarez,William Brockman,Tae Kyung Kim,Richard Koche,Richard Koche,Richard Koche,William Lee,Eric M. Mendenhall,Eric M. Mendenhall,Aisling O'Donovan,Aviva Presser,Carsten Russ,Xiaohui Xie,Alexander Meissner,Marius Wernig,Rudolf Jaenisch,Chad Nusbaum,Eric S. Lander,Eric S. Lander,Bradley E. Bernstein,Bradley E. Bernstein +29 more
TL;DR: The application of single-molecule-based sequencing technology for high-throughput profiling of histone modifications in mammalian cells is reported and it is shown that chromatin state can be read in an allele-specific manner by using single nucleotide polymorphisms.
Journal ArticleDOI
RAG-1-deficient mice have no mature B and T lymphocytes
Peter Mombaerts,John Iacomini,Randall S. Johnson,Karl Herrup,Susumu Tonegawa,Virginia E. Papaioannou +5 more
TL;DR: The introduction of a mutation in RAG-1 into the germline of mice via gene targeting in embryonic stem cells is described and it is shown that this mutation either activates or catalyzes the V(D)J recombination reaction of immunoglobulin and T cell receptor genes.
Journal ArticleDOI
Integration of External Signaling Pathways with the Core Transcriptional Network in Embryonic Stem Cells
Xi Chen,Han Xu,Ping Yuan,Fang Fang,Fang Fang,Mikael Huss,Vinsensius B. Vega,Eleanor Wong,Yuriy L. Orlov,Weiwei Zhang,Weiwei Zhang,Jianming Jiang,Jianming Jiang,Yuin-Han Loh,Yuin-Han Loh,Hock Chuan Yeo,Zhen Xuan Yeo,Vipin Narang,Kunde R Govindarajan,Bernard Leong,Atif Shahab,Yijun Ruan,Guillaume Bourque,Wing-Kin Sung,Neil D. Clarke,Chia-Lin Wei,Huck-Hui Ng,Huck-Hui Ng +27 more
TL;DR: This study uses chromatin immunoprecipitation coupled with ultra-high-throughput DNA sequencing to map the locations of TF-binding sites and identifies important features of the transcriptional regulatory networks that define ES-cell identity.
Journal ArticleDOI
Genome-scale DNA methylation maps of pluripotent and differentiated cells
Alexander Meissner,Tarjei S. Mikkelsen,Tarjei S. Mikkelsen,Hongcang Gu,Marius Wernig,Jacob H. Hanna,Andrey Sivachenko,Xiaolan Zhang,Bradley E. Bernstein,Bradley E. Bernstein,Chad Nusbaum,David B. Jaffe,Andreas Gnirke,Rudolf Jaenisch,Eric S. Lander +14 more
TL;DR: Low-throughput reduced representation bisulphite sequencing is established as a powerful technology for epigenetic profiling of cell populations relevant to developmental biology, cancer and regenerative medicine.