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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Multilineage Priming of Enhancer Repertoires Precedes Commitment to the B and Myeloid Cell Lineages in Hematopoietic Progenitors
Elinore M. Mercer,Yin C. Lin,Christopher Benner,Suchit Jhunjhunwala,Janusz Dutkowski,Martha Flores,Mikael Sigvardsson,Trey Ideker,Christopher K. Glass,Cornelis Murre +9 more
TL;DR: Genome-wide analyses revealed that a substantial fraction of lymphoid and myeloid enhancers are premarked by the poised or active enhancer mark H3K4me1 in multipotent progenitors, indicating that in hematopoietic progenitor, multilineage priming of enhancer elements precedes commitment to the lymphoid or myeloids cell lineages.
Journal ArticleDOI
Autism genes converge on asynchronous development of shared neuron classes
Bruna S. Paulsen,Silvia Velasco,Amanda J. Kedaigle,Martina Pigoni,Giorgia Quadrato,Anthony J. Deo,Xian Adiconis,Ana Uzquiano,Rafaela Sartore,Sung Min Yang,Sean Simmons,P Symvoulidis,Kwanho Kim,Kalliopi Tsafou,Archana Podury,Catherine Abbate,Ashley Tucewicz,Samantha N Smith,Alexandre Albanese,Lindy E. Barrett,Neville E. Sanjana,Xi Shi,Kwang-Ho Chung,Kasper Lage,Edward S. Boyden,Aviv Regev,Joshua Z. Levin,Paola Arlotta +27 more
TL;DR: In this paper , the authors used organoid models of the human cerebral cortex to identify cell-type-specific developmental abnormalities that result from haploinsufficiency in three ASD risk genes, SUV420H1 (also known as KMT5B), ARID1B, and CHD8, in multiple cell lines from different donors.
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Crebbp Loss Drives Small Cell Lung Cancer and Increases Sensitivity to HDAC Inhibition.
Deshui Jia,Arnaud Augert,Dong-Wook Kim,Emily Eastwood,Nan Wu,Ali H. Ibrahim,Kee Beom Kim,Colin T. Dunn,Smitha P. S. Pillai,Adi F. Gazdar,Hamid Bolouri,Kwon-Sik Park,David MacPherson,David MacPherson +13 more
TL;DR: It is demonstrated that CREBBP loss in SCLC reduces histone acetylation and transcription of cellular adhesion genes, while driving tumorigenesis, which can be partially restored by HDAC inhibition, which exhibited enhanced effectiveness in Crebbp-deleted tumors.
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Single-cell multiomic profiling of human lungs reveals cell-type-specific and age-dynamic control of SARS-CoV2 host genes.
Allen Wang,Joshua Chiou,Olivier Poirion,Justin Buchanan,Michael J Valdez,Jamie M. Verheyden,Xiaomeng Hou,Parul Kudtarkar,Sharvari Narendra,Jacklyn M Newsome,Minzhe Guo,Minzhe Guo,Dina A. Faddah,Kai Zhang,Randee E. Young,Randee E. Young,Justinn Barr,Eniko Sajti,Ravi S. Misra,Heidie Huyck,Lisa Rogers,Cory Poole,JA Whitsett,JA Whitsett,Gloria S. Pryhuber,Yan Xu,Yan Xu,Kyle J. Gaulton,Sebastian Preissl,Xin Sun +29 more
TL;DR: These datasets will facilitate interpretation of risk loci for lung diseases and provide insight into regulatory logic underlying genes implicated in COVID-19 in individual lung cell types across age.
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Joint profiling of histone modifications and transcriptome in single cells from mouse brain.
TL;DR: Paired-Tag as discussed by the authors was used to profile five histone modifications jointly with transcriptome in the adult mouse frontal cortex and hippocampus to produce cell-type-resolved maps of chromatin state and transcriptome.
References
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Artem Barski,Suresh Cuddapah,Kairong Cui,Tae-Young Roh,Dustin E. Schones,Zhibin Wang,Gang Wei,Iouri Chepelev,Keji Zhao +8 more
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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.
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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.