TOX reinforces the phenotype and longevity of exhausted T cells in chronic viral infection

Expression of the DNA-Binding Factor TOX Promotes the Encephalitogenic Potential of Microbe-Induced Autoreactive CD8 + T Cells

(2018) Nicolas Page et al.   IMMUNITY

Induction and transcriptional regulation of the co-inhibitory gene module in T cells

(2018) Norio Chihara et al.   NATURE

Effector CD8 T cells dedifferentiate into long-lived memory cells

(2017) Ben Youngblood et al.   NATURE

Chromatin states define tumour-specific T cell dysfunction and reprogramming

(2017) Mary Philip et al.   NATURE

FOXO1 opposition of CD8+T cell effector programming confers early memory properties and phenotypic diversity

(2017) Arnaud Delpoux et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TCF1+ hepatitis C virus-specific CD8+ T cells are maintained after cessation of chronic antigen stimulation

(2017) Dominik Wieland et al.   Nature Communications

Targeting Multiple Tumors Using T-Cells Engineered to Express a Natural Cytotoxicity Receptor 2-Based Chimeric Receptor

(2017) Vasyl Eisenberg et al.   Frontiers in Immunology

MultiQC: summarize analysis results for multiple tools and samples in a single report

(2016) Philip Ewels et al.   BIOINFORMATICS

T Cell Factor 1-Expressing Memory-like CD8 + T Cells Sustain the Immune Response to Chronic Viral Infections

(2016) Daniel T. Utzschneider et al.   IMMUNITY

High antigen levels induce an exhausted phenotype in a chronic infection without impairing T cell expansion and survival

(2016) Daniel T. Utzschneider et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Defining CD8+ T cells that provide the proliferative burst after PD-1 therapy

(2016) Se Jin Im et al.   NATURE

Enrichr: a comprehensive gene set enrichment analysis web server 2016 update

(2016) Maxim V. Kuleshov et al.   NUCLEIC ACIDS RESEARCH

Epigenetic stability of exhausted T cells limits durability of reinvigoration by PD-1 blockade

(2016) K. E. Pauken et al.   SCIENCE

CD8 + T Lymphocyte Self-Renewal during Effector Cell Determination

(2016) Wen-Hsuan W. Lin et al.   Cell Reports

The Transcription Factor NFAT Promotes Exhaustion of Activated CD8 + T Cells

(2015) Gustavo J. Martinez et al.   IMMUNITY

Genetic absence of PD-1 promotes accumulation of terminally differentiated exhausted CD8+T cells

(2015) Pamela M. Odorizzi et al.   JOURNAL OF EXPERIMENTAL MEDICINE

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

An NCR1-based chimeric receptor endows T-cells with multiple anti-tumor specificities

(2015) Yair Tal et al.   Oncotarget

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

(2014) S. Anders et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Tetramer Enrichment Reveals the Presence of Phenotypically Diverse Hepatitis C Virus-Specific CD8+T Cells in Chronic Infection

(2014) Katja Nitschke et al.   JOURNAL OF VIROLOGY

A Bayesian hierarchical model to detect differentially methylated loci from single nucleotide resolution sequencing data

(2014) Hao Feng et al.   NUCLEIC ACIDS RESEARCH

Anti-IFN-  and Peptide-Tolerization Therapies Inhibit Acute Lung Injury Induced by Cross-Reactive Influenza A-Specific Memory T Cells

(2013) M. F. Wlodarczyk et al.   JOURNAL OF IMMUNOLOGY

Hypoxia-inducible factors enhance the effector responses of CD8+ T cells to persistent antigen

(2013) Andrew L Doedens et al.   NATURE IMMUNOLOGY

T cells maintain an exhausted phenotype after antigen withdrawal and population reexpansion

(2013) Daniel T Utzschneider et al.   NATURE IMMUNOLOGY

Tolerance and exhaustion: defining mechanisms of T cell dysfunction

(2013) Andrea Schietinger et al.   TRENDS IN IMMUNOLOGY

Clonal Exhaustion as a Mechanism to Protect Against Severe Immunopathology and Death from an Overwhelming CD8 T Cell Response

(2013) Markus Cornberg et al.   Frontiers in Immunology

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Snakemake--a scalable bioinformatics workflow engine

(2012) J. Koster et al.   BIOINFORMATICS

The TCF-1 and LEF-1 Transcription Factors Have Cooperative and Opposing Roles in T Cell Development and Malignancy

(2012) Shuyang Yu et al.   IMMUNITY

Programmed death 1 protects from fatal circulatory failure during systemic virus infection of mice

(2012) Helge Frebel et al.   JOURNAL OF EXPERIMENTAL MEDICINE

The many roles of TOX in the immune system

(2011) Parinaz Aliahmad et al.   CURRENT OPINION IN IMMUNOLOGY

Chronic Virus Infection Enforces Demethylation of the Locus that Encodes PD-1 in Antigen-Specific CD8+ T Cells

(2011) Ben Youngblood et al.   IMMUNITY

T cell exhaustion

(2011) E John Wherry   NATURE IMMUNOLOGY

BSMAP: whole genome bisulfite sequence MAPping program

(2009) Yuanxin Xi et al.   BMC BIOINFORMATICS

Microarray background correction: maximum likelihood estimation for the normal-exponential convolution

(2008) J. D. Silver et al.   BIOSTATISTICS

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY