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
Rhythmic Food Intake Drives Rhythmic Gene Expression More Potently than the Hepatic Circadian Clock in Mice.
Ben J. Greenwell,Alexandra J. Trott,Joshua R. Beytebiere,Shanny Pao,Alexander Bosley,Erin Beach,Patrick Finegan,Christopher Hernandez,Jerome S. Menet +8 more
TL;DR: It is demonstrated that systemic signals driven by rhythmic food intake significantly contribute to driving rhythms in liver gene expression and metabolic functions independently of the cell-autonomous hepatic clock.
Journal ArticleDOI
Macrophages, Oxysterols and Atherosclerosis
TL;DR: The mechanisms of oxysterol-induced functions and their physiological roles in macrophages are reviewed and potent bioactive lipids that regulate lipid metabolism, immune function, and cytotoxicity are reviewed.
Journal ArticleDOI
Genotyping by Sequencing for SNP-Based Linkage Map Construction and QTL Analysis of Chilling Requirement and Bloom Date in Peach [Prunus persica (L.) Batsch]
Douglas G. Bielenberg,Bradley L. Rauh,Shenghua Fan,Ksenija Gasic,Albert G. Abbott,Gregory L. Reighard,William R. Okie,Christina E. Wells +7 more
TL;DR: The Genotyping-By-Sequencing (GBS) method developed for cereals is applied to the discovery of single nucleotide polymorphisms (SNPs) in a peach F2 mapping population, a genetic and genomic model within the Rosaceae and will provide a template for the use of this method with other members of this family.
Journal ArticleDOI
Single-Cell RNA Sequencing Analysis Reveals a Crucial Role for CTHRC1 (Collagen Triple Helix Repeat Containing 1) Cardiac Fibroblasts After Myocardial Infarction.
Adrián Ruiz-Villalba,Juan P. Romero,Silvia C. Hernandez,Amaia Vilas-Zornoza,Nikolaus Fortelny,Laura Castro-Labrador,Patxi San Martin-Uriz,Erika Lorenzo-Vivas,Paula García-Olloqui,Marcel Palacio,Juan José Gavira,Gorka Bastarrika,Stefan Janssens,Ming Wu,E. Iglesias,Gloria Abizanda,Xabier Martinez de Morentin,Miren Lasaga,Núria Planell,Christoph Bock,Christoph Bock,Diego Alignani,Gema Medal,Igor Prudovsky,Yong-Ri Jin,Sergey Ryzhov,Haifeng Yin,Beatriz Pelacho,David Gomez-Cabrero,Volkhard Lindner,David Lara-Astiaso,Felipe Prosper +31 more
TL;DR: This study identifies Cthrc1 as a novel regulator of the healing scar process, and as a target for future translational studies.
Journal ArticleDOI
DNA methylation at enhancers identifies distinct breast cancer lineages
Thomas Fleischer,Xavier Tekpli,Xavier Tekpli,Anthony Mathelier,Anthony Mathelier,Shixiong Wang,Daniel Nebdal,Hari Prasad Dhakal,Kristine Kleivi Sahlberg,Kristine Kleivi Sahlberg,Ellen Schlichting,Anne Lise Børresen-Dale,Elin Borgen,Bjørn Naume,Ragnhild Eskeland,Ragnhild Eskeland,Arnoldo Frigessi,Jörg Tost,Antoni Hurtado,Antoni Hurtado,Vessela N. Kristensen,Vessela N. Kristensen,Vessela N. Kristensen +22 more
TL;DR: By combining genome-wide DNA methylation and gene expression analysis, transcriptional networks regulated by DNAmethylation at enhancers able to separate specific breast cancer subtypes are identified.
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.