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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Genome-wide reprogramming of the chromatin landscape underlies endocrine therapy resistance in breast cancer
Luca Magnani,Alexander Stoeck,Xiaoyang Zhang,András Lánczky,Anne C. Mirabella,Anne C. Mirabella,Tian Li Wang,Balazs Gyorffy,Mathieu Lupien +8 more
TL;DR: It is demonstrated that genome-wide reprogramming of the chromatin landscape, defined by epigenomic maps for regulatory elements or transcriptional activation and chromatin openness, underlies resistance to endocrine therapy.
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TCR Transgenic Mice Reveal Stepwise, Multi-site Acquisition of the Distinctive Fat-Treg Phenotype
Chaoran Li,Joanna R. DiSpirito,David Zemmour,Raul German Spallanzani,Wilson Kuswanto,Christophe Benoist,Diane Mathis +6 more
TL;DR: This work definitively established a role for T cell receptor specificity, uncovered an unexpected function for the primordial Treg transcription-factor, Foxp3, evidenced a cell-intrinsic role for interleukin-33 receptor, and ordered these dependencies within a coherent scenario.
Journal ArticleDOI
Galaxy HiCExplorer: a web server for reproducible Hi-C data analysis, quality control and visualization
Joachim Wolff,Vivek Bhardwaj,Vivek Bhardwaj,Stephan Nothjunge,Gautier Richard,Gautier Richard,Gina Renschler,Gina Renschler,Ralf Gilsbach,Thomas Manke,Rolf Backofen,Fidel Ramírez,Björn Grüning +12 more
TL;DR: The Galaxy HiCExplorer web server facilitates the study of the 3D conformation of chromatin by allowing Hi-C data processing, analysis and visualization with little bioinformatic background.
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An NF-κB Transcription-Factor-Dependent Lineage-Specific Transcriptional Program Promotes Regulatory T Cell Identity and Function
Hyunju Oh,Yenkel Grinberg-Bleyer,Will Liao,Dillon Maloney,Pingzhang Wang,Zikai Wu,Jiguang Wang,Dev M. Bhatt,Nicole Heise,Roland M. Schmid,Matthew S. Hayden,Ulf Klein,Raul Rabadan,Sankar Ghosh +13 more
TL;DR: This work conditionally deleted canonical NF-κB members p65 and c-Rel in developing and mature Treg cells and found they have unique but partially redundant roles and underscores the need for more selective strategies to therapeutically target NF-σκB.
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Identification of a Master Regulator of Differentiation in Toxoplasma
Benjamin S. Waldman,Dominic Schwarz,Dominic Schwarz,Marc H. Wadsworth,Marc H. Wadsworth,Marc H. Wadsworth,Jeroen P. J. Saeij,Alex K. Shalek,Alex K. Shalek,Alex K. Shalek,Sebastian Lourido +10 more
TL;DR: A Myb-like transcription factor (BFD1) necessary for differentiation in cell culture and in mice is identified and represents a counterpoint to the ApiAP2 factors that dominate the current view of parasite gene regulation.
References
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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.
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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.