AP-1 activity induced by co-stimulation is required for chromatin opening during T cell activation

Leveraging chromatin accessibility for transcriptional regulatory network inference in T Helper 17 Cells

(2019) Emily R. Miraldi et al.   GENOME RESEARCH

Transcription factors operate across disease loci, with EBNA2 implicated in autoimmunity

(2018) John B. Harley et al.   NATURE GENETICS

AP-1 Transcription Factors and the BAF Complex Mediate Signal-Dependent Enhancer Selection

(2017) Thomas Vierbuchen et al.   MOLECULAR CELL

Effector CD8 T cells dedifferentiate into long-lived memory cells

(2017) Ben Youngblood et al.   NATURE

Genetic variants alter T-bet binding and gene expression in mucosal inflammatory disease

(2017) Katrina Soderquest et al.   PLoS Genetics

Pioneer transcription factors, chromatin dynamics, and cell fate control

(2016) Kenneth S Zaret et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Inducible chromatin priming is associated with the establishment of immunological memory in T cells

(2016) S. L. Bevington et al.   EMBO JOURNAL

Transcription Factor Ets-2 Acts as a Preinduction Repressor of Interleukin-2 (IL-2) Transcription in Naive T Helper Lymphocytes

(2016) Ioannis Panagoulias et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

T Cell Receptor-induced Nuclear Factor κB (NF-κB) Signaling and Transcriptional Activation Are Regulated by STIM1- and Orai1-mediated Calcium Entry

(2016) Xiaohong Liu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Differential peak calling of ChIP-seq signals with replicates with THOR

(2016) Manuel Allhoff et al.   NUCLEIC ACIDS RESEARCH

TCR and CD28 activate the transcription factor NF-κB in T-cells via distinct adaptor signaling complexes

(2015) Youg Raj Thaker et al.   IMMUNOLOGY LETTERS

Defining CD4 T Cell Memory by the Epigenetic Landscape of CpG DNA Methylation

(2015) H. Kiyomi Komori et al.   JOURNAL OF IMMUNOLOGY

Demethylation of theRORC2andIL17Ain Human CD4+T Lymphocytes Defines Th17 Origin of Nonclassic Th1 Cells

(2015) Alessio Mazzoni et al.   JOURNAL OF IMMUNOLOGY

Calcium mobilization is both required and sufficient for initiating chromatin decondensation during activation of peripheral T-cells

(2015) Megan D. Lee et al.   MOLECULAR IMMUNOLOGY

ChIPmentation: fast, robust, low-input ChIP-seq for histones and transcription factors

(2015) Christian Schmidl et al.   NATURE METHODS

Opposing roles of STAT1 and STAT3 in IL-21 function in CD4+T cells

(2015) Chi-Keung Wan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Functional Characterization of Human T Cell Hyporesponsiveness Induced by CTLA4-Ig

(2015) Yrina Rochman et al.   PLoS One

Genetic and epigenetic fine mapping of causal autoimmune disease variants

(2014) Kyle Kai-How Farh et al.   NATURE

c-Myc-induced transcription factor AP4 is required for host protection mediated by CD8+ T cells

(2014) Chun Chou et al.   NATURE IMMUNOLOGY

Epigenomic analysis of primary human T cells reveals enhancers associated with TH2 memory cell differentiation and asthma susceptibility

(2014) Grégory Seumois et al.   NATURE IMMUNOLOGY

Selective Inhibition of Tumor Oncogenes by Disruption of Super-Enhancers

(2013) Jakob Lovén et al.   CELL

Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes

(2013) Warren A. Whyte et al.   CELL

Global Chromatin State Analysis Reveals Lineage-Specific Enhancers during the Initiation of Human T helper 1 and T helper 2 Cell Polarization

(2013) R. David Hawkins et al.   IMMUNITY

Opposing Roles of STAT4 and Dnmt3a in Th1 Gene Regulation

(2013) D. Pham et al.   JOURNAL OF IMMUNOLOGY

NFATc2 recruits cJun homodimers to an NFAT site to synergistically activate interleukin-2 transcription

(2013) Ryan D. Walters et al.   MOLECULAR IMMUNOLOGY

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position

(2013) Jason D Buenrostro et al.   NATURE METHODS

T cell immunity as a tool for studying epigenetic regulation of cellular differentiation

(2013) Brendan E. Russ et al.   Frontiers in Genetics

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Revisiting Global Gene Expression Analysis

(2012) Jakob Lovén et al.   CELL

STATs Shape the Active Enhancer Landscape of T Cell Populations

(2012) Golnaz Vahedi et al.   CELL

T Cell Receptor Stimulation-Induced Epigenetic Changes and Foxp3 Expression Are Independent and Complementary Events Required for Treg Cell Development

(2012) Naganari Ohkura et al.   IMMUNITY

T-bet and GATA3 orchestrate Th1 and Th2 differentiation through lineage-specific targeting of distal regulatory elements

(2012) Aditi Kanhere et al.   Nature Communications

MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets

(2012) Zhen Shao et al.   GENOME BIOLOGY

The Transcription Factor Myc Controls Metabolic Reprogramming upon T Lymphocyte Activation

(2011) Ruoning Wang et al.   IMMUNITY

Recruitment of SWI/SNF Complex Is Required for Transcriptional Activation of theSLC11A1Gene during Macrophage Differentiation of HL-60 Cells

(2011) Yong Zhong Xu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Transcription Factor AP1 Potentiates Chromatin Accessibility and Glucocorticoid Receptor Binding

(2011) Simon C. Biddie et al.   MOLECULAR CELL

Mapping and analysis of chromatin state dynamics in nine human cell types

(2011) Jason Ernst et al.   NATURE

The Human Epigenome Browser at Washington University

(2011) Xin Zhou et al.   NATURE METHODS

Differentiation of Effector CD4 T Cell Populations

(2010) Jinfang Zhu et al.   Annual Review of Immunology

Chromatin condensation via the condensin II complex is required for peripheral T-cell quiescence

(2010) Jason S Rawlings et al.   EMBO JOURNAL

Diverse Targets of the Transcription Factor STAT3 Contribute to T Cell Pathogenicity and Homeostasis

(2010) Lydia Durant et al.   IMMUNITY

Epigenetic Instability of Cytokine and Transcription Factor Gene Loci Underlies Plasticity of the T Helper 17 Cell Lineage

(2010) Ryuta Mukasa et al.   IMMUNITY

Peripheral CD4+ T-cell differentiation regulated by networks of cytokines and transcription factors

(2010) Jinfang Zhu et al.   IMMUNOLOGICAL REVIEWS

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

The C-terminal region of human NFATc2 binds cJun to synergistically activate interleukin-2 transcription

(2010) Tuan N. Nguyen et al.   MOLECULAR IMMUNOLOGY

Mechanisms Underlying Lineage Commitment and Plasticity of Helper CD4+ T Cells

(2010) J. J. O'Shea et al.   SCIENCE

Epigenetics of human T cells during the G0->G1 transition

(2009) A. E. Smith et al.   GENOME RESEARCH

Chromatin poises miRNA- and protein-coding genes for expression

(2009) A. Barski et al.   GENOME RESEARCH

Global Mapping of H3K4me3 and H3K27me3 Reveals Specificity and Plasticity in Lineage Fate Determination of Differentiating CD4+ T Cells

(2009) Gang Wei et al.   IMMUNITY

CCCTC-Binding Factor and the Transcription Factor T-bet Orchestrate T Helper 1 Cell-Specific Structure and Function at the Interferon-γ Locus

(2009) Masayuki Sekimata et al.   IMMUNITY

Transcription factor ELF4 controls the proliferation and homing of CD8+ T cells via the Krüppel-like factors KLF4 and KLF2

(2009) Takeshi Yamada et al.   NATURE IMMUNOLOGY

E3 ubiquitin ligase GRAIL controls primary T cell activation and oral tolerance

(2009) M. A. Kriegel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Combinatorial patterns of histone acetylations and methylations in the human genome

(2008) Zhibin Wang et al.   NATURE GENETICS

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY