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
Reads0
Chats0
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
Citations
More filters
Journal ArticleDOI
The TREM2-APOE Pathway Drives the Transcriptional Phenotype of Dysfunctional Microglia in Neurodegenerative Diseases
Susanne Krasemann,Susanne Krasemann,Charlotte Madore,Ron Cialic,Caroline Baufeld,Narghes Calcagno,Rachid El Fatimy,Lien Beckers,Elaine O’Loughlin,Yang Xu,Zain Fanek,David J. Greco,Scott T. Smith,George Tweet,Zachary Humulock,Tobias Zrzavy,Patricia Conde-Sanroman,Mar Gacias,Zhiping Weng,Hao Chen,Emily C. Tjon,Fargol Mazaheri,Kristin Hartmann,Asaf Madi,Jason D. Ulrich,Markus Glatzel,Anna Worthmann,Joerg Heeren,Bogdan Budnik,Cynthia A. Lemere,Tsuneya Ikezu,Frank L. Heppner,Vladimir Litvak,David M. Holtzman,Hans Lassmann,Howard L. Weiner,Jordi Ochando,Christian Haass,Oleg Butovsky +38 more
TL;DR: The TREM2-APOE pathway is identified as a major regulator of microglial functional phenotype in neurodegenerative diseases and serves as a novel target that could aid in the restoration of homeostatic microglia.
Journal ArticleDOI
Mammalian WTAP is a regulatory subunit of the RNA N6-methyladenosine methyltransferase
Xiao-Li Ping,Bao-Fa Sun,Lu Wang,Wen Xiao,Xin Yang,Wenjia Wang,Samir Adhikari,Yue Shi,Ying Lv,Yu-Sheng Chen,Xu Zhao,Ang Li,Ying Yang,Ujwal Dahal,Xiao-Min Lou,Xi Liu,Jun Huang,Weiping Yuan,Xiaofan Zhu,Tao Cheng,Yong-Liang Zhao,Xinquan Wang,Jannie M. Rendtlew Danielsen,Feng Liu,Yun-Gui Yang +24 more
TL;DR: In this paper, two new components of the human m6A methyltransferase complex, Wilms' tumor 1-associating protein (WTAP) and methyl transferase like 14 (METTL14), were reported.
Journal ArticleDOI
Pioneer transcription factors: establishing competence for gene expression
TL;DR: The field is reviewed and how pioneer factors may enable cellular reprogramming is described, which can passively enhance transcription by reducing the number of additional factors that are needed to bind the DNA, culminating in activation.
Journal ArticleDOI
HiC-Pro: an optimized and flexible pipeline for Hi-C data processing
Nicolas Servant,Nelle Varoquaux,Nelle Varoquaux,Nelle Varoquaux,Bryan R. Lajoie,Eric Viara,Chong-Jian Chen,Jean-Philippe Vert,Jean-Philippe Vert,Jean-Philippe Vert,Edith Heard,Edith Heard,Edith Heard,Job Dekker,Emmanuel Barillot,Emmanuel Barillot,Emmanuel Barillot +16 more
TL;DR: This work applied HiC-Pro to different Hi-C datasets, demonstrating its ability to easily process large data in a reasonable time and its fast implementation of the iterative correction method.
Journal ArticleDOI
Recognition of RNA N 6 -methyladenosine by IGF2BP proteins enhances mRNA stability and translation
Huilin Huang,Huilin Huang,Hengyou Weng,Hengyou Weng,Wen-Ju Sun,Xi Qin,Xi Qin,Hailing Shi,Hailing Shi,Huizhe Wu,Huizhe Wu,Huizhe Wu,Boxuan Simen Zhao,Boxuan Simen Zhao,Ana Mesquita,Chang Liu,Chang Liu,Celvie L. Yuan,Yueh-Chiang Hu,Stefan Hüttelmaier,Jennifer R. Skibbe,Rui Su,Rui Su,Xiaolan Deng,Xiaolan Deng,Xiaolan Deng,Lei Dong,Lei Dong,Miao Sun,Chenying Li,Chenying Li,Chenying Li,Sigrid Nachtergaele,Sigrid Nachtergaele,Yungui Wang,Yungui Wang,Chao Hu,Chao Hu,Kyle Ferchen,Kenneth D. Greis,Xi Jiang,Xi Jiang,Minjie Wei,Liang-Hu Qu,Jun-Lin Guan,Chuan He,Chuan He,Jian-Hua Yang,Jianjun Chen,Jianjun Chen +49 more
TL;DR: This work reports the insulin-like growth factor 2 mRNA-binding proteins as a distinct family of m6A readers that target thousands of mRNA transcripts through recognizing the consensus GG(m6A)C sequence, and identifies IGF2BPs as an additional class of N6-methyladenosine (m 6A) reader proteins.
References
More filters
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.