Essential role of a ThPOK autoregulatory loop in the maintenance of mature CD4+ T cell identity and function

T Cell Receptor Is Required for Differentiation, but Not Maintenance, of Intestinal CD4+ Intraepithelial Lymphocytes

(2020) Angelina M. Bilate et al.   IMMUNITY

The Emergence and Functional Fitness of Memory CD4+ T Cells Require the Transcription Factor Thpok

(2019) Thomas Ciucci et al.   IMMUNITY

Single-Cell Transcriptomics of Regulatory T Cells Reveals Trajectories of Tissue Adaptation

(2019) Ricardo J. Miragaia et al.   IMMUNITY

EOMES interacts with RUNX3 and BRG1 to promote innate memory cell formation through epigenetic reprogramming

(2019) Nicolas Istaces et al.   Nature Communications

A Thpok-Directed Transcriptional Circuitry Promotes Bcl6 and Maf Expression to Orchestrate T Follicular Helper Differentiation

(2019) Melanie S. Vacchio et al.   IMMUNITY

Single-Cell Analysis Reveals Regulatory Gene Expression Dynamics Leading to Lineage Commitment in Early T Cell Development

(2019) Wen Zhou et al.   Cell Systems

T Cell Receptor-Regulated TGF-β Type I Receptor Expression Determines T Cell Quiescence and Activation

(2018) Eric Tu et al.   IMMUNITY

Molecular transitions in early progenitors during human cord blood hematopoiesis

(2018) Shiwei Zheng et al.   Molecular Systems Biology

Functional Conservation of a Developmental Switch in Mammals since the Jurassic Age

(2018) Jayati Mookerjee-Basu et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genomic encoding of transcriptional burst kinetics

(2018) Anton J. M. Larsson et al.   NATURE

Control of Regulatory T Cell Differentiation by the Transcription Factors Thpok and LRF

(2017) Andrea C. Carpenter et al.   JOURNAL OF IMMUNOLOGY

NKG2C/E Marks the Unique Cytotoxic CD4 T Cell Subset, ThCTL, Generated by Influenza Infection

(2016) Nikki B. Marshall et al.   JOURNAL OF IMMUNOLOGY

Affinity for self antigen selects Treg cells with distinct functional properties

(2016) Lena Wyss et al.   NATURE IMMUNOLOGY

Tissue adaptation of regulatory and intraepithelial CD4+ T cells controls gut inflammation

(2016) T. Sujino et al.   SCIENCE

Human Gene-Centered Transcription Factor Networks for Enhancers and Disease Variants

(2015) Juan I. Fuxman Bass et al.   CELL

Super-enhancers delineate disease-associated regulatory nodes in T cells

(2015) Golnaz Vahedi et al.   NATURE

dbSUPER: a database of super-enhancers in mouse and human genome

(2015) Aziz Khan et al.   NUCLEIC ACIDS RESEARCH

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

A ThPOK-LRF transcriptional node maintains the integrity and effector potential of post-thymic CD4+ T cells

(2014) Melanie S Vacchio et al.   NATURE IMMUNOLOGY

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

(2013) Warren A. Whyte et al.   CELL

Systemic 4-1BB activation induces a novel T cell phenotype driven by high expression of Eomesodermin

(2013) Michael A. Curran et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Transcriptional reprogramming of mature CD4+ helper T cells generates distinct MHC class II–restricted cytotoxic T lymphocytes

(2013) Daniel Mucida et al.   NATURE IMMUNOLOGY

Mutual expression of the transcription factors Runx3 and ThPOK regulates intestinal CD4+ T cell immunity

(2013) Bernardo Sgarbi Reis et al.   NATURE IMMUNOLOGY

Early T-cell progenitors are the major granulocyte precursors in the adult mouse thymus

(2012) M. E. De Obaldia et al.   BLOOD

Dynamic Transformations of Genome-wide Epigenetic Marking and Transcriptional Control Establish T Cell Identity

(2012) Jingli A. Zhang et al.   CELL

Induction of tumoricidal function in CD4+T cells is associated with concomitant memory and terminally differentiated phenotype

(2012) Daniel Hirschhorn-Cymerman et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Identifying ChIP-seq enrichment using MACS

(2012) Jianxing Feng et al.   Nature Protocols

Integrative annotation of chromatin elements from ENCODE data

(2012) Michael M. Hoffman et al.   NUCLEIC ACIDS RESEARCH

CD134 Plus CD137 Dual Costimulation Induces Eomesodermin in CD4 T Cells To Program Cytotoxic Th1 Differentiation

(2011) H. Z. Qui et al.   JOURNAL OF IMMUNOLOGY

Enhanced yeast one-hybrid assays for high-throughput gene-centered regulatory network mapping

(2011) John S Reece-Hoyes et al.   NATURE METHODS

Yeast one-hybrid assays for gene-centered human gene regulatory network mapping

(2011) John S Reece-Hoyes et al.   NATURE METHODS

Mammalian Genes Are Transcribed with Widely Different Bursting Kinetics

(2011) D. M. Suter et al.   SCIENCE

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

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

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

The Zinc Finger Transcription Factor Zbtb7b Represses CD8-Lineage Gene Expression in Peripheral CD4+ T Cells

(2008) Lie Wang et al.   IMMUNITY

CD4-CD8 Lineage Commitment Is Regulated by a Silencer Element at the ThPOK Transcription-Factor Locus

(2008) Xi He et al.   IMMUNITY

Cascading suppression of transcriptional silencers by ThPOK seals helper T cell fate

(2008) Sawako Muroi et al.   NATURE IMMUNOLOGY

Repression of the Transcription Factor Th-POK by Runx Complexes in Cytotoxic T Cell Development

(2008) R. Setoguchi et al.   SCIENCE