Epigenetic Reprogramming in Naive CD4+ T Cells Favoring T Cell Activation and Non-Th1 Effector T Cell Immune Response as an Early Event in Lupus Flares

High-density genotyping of immune-related loci identifies new SLE risk variants in individuals with Asian ancestry

(2016) Celi Sun et al.   NATURE GENETICS

ChIPseeker: an R/Bioconductor package for ChIP peak annotation, comparison and visualization

(2015) Guangchuang Yu et al.   BIOINFORMATICS

T cell PKCδ kinase inactivation induces lupus-like autoimmunity in mice

(2015) Gabriela Gorelik et al.   CLINICAL IMMUNOLOGY

Renal involvement in lupus is characterized by unique DNA methylation changes in naïve CD4+ T cells

(2015) Patrick Coit et al.   JOURNAL OF AUTOIMMUNITY

T cell signaling abnormalities contribute to aberrant immune cell function and autoimmunity

(2015) Vaishali R. Moulton et al.   JOURNAL OF CLINICAL INVESTIGATION

Genetic association analyses implicate aberrant regulation of innate and adaptive immunity genes in the pathogenesis of systemic lupus erythematosus

(2015) James Bentham et al.   NATURE GENETICS

Cancer mediates effector T cell dysfunction by targeting microRNAs and EZH2 via glycolysis restriction

(2015) Ende Zhao et al.   NATURE IMMUNOLOGY

Normalization of CD4 + T cell metabolism reverses lupus

(2015) Yiming Yin et al.   Science Translational Medicine

Ethnicity-specific epigenetic variation in naïve CD4+ T cells and the susceptibility to autoimmunity

(2015) Patrick Coit et al.   Epigenetics & Chromatin

EZH2 is crucial for both differentiation of regulatory T cells and T effector cell expansion

(2015) Xiang-Ping Yang et al.   Scientific Reports

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

ATRX Directs Binding of PRC2 to Xist RNA and Polycomb Targets

(2014) Kavitha Sarma et al.   CELL

Autoimmune disease in the epigenetic era: how has epigenetics changed our understanding of disease and how can we expect the field to evolve?

(2014) Matlock A Jeffries et al.   Expert Review of Clinical Immunology

Ezh2 Regulates Transcriptional and Posttranslational Expression of T-bet and Promotes Th1 Cell Responses Mediating Aplastic Anemia in Mice

(2014) Q. Tong et al.   JOURNAL OF IMMUNOLOGY

The Polycomb Protein Ezh2 Regulates Differentiation and Plasticity of CD4+ T Helper Type 1 and Type 2 Cells

(2013) Damon J. Tumes et al.   IMMUNITY

Genome-wide DNA methylation study suggests epigenetic accessibility and transcriptional poising of interferon-regulated genes in naïve CD4+ T cells from lupus patients

(2013) Patrick Coit et al.   JOURNAL OF AUTOIMMUNITY

The sva package for removing batch effects and other unwanted variation in high-throughput experiments

(2012) Jeffrey T. Leek et al.   BIOINFORMATICS

ENCODE Data in the UCSC Genome Browser: year 5 update

(2012) Kate R. Rosenbloom et al.   NUCLEIC ACIDS RESEARCH

GenomeRunner: automating genome exploration

(2011) Mikhail G. Dozmorov et al.   BIOINFORMATICS

SHRiMP: Accurate Mapping of Short Color-space Reads

(2009) Stephen M. Rumble et al.   PLoS Computational Biology

Epigenetics and T-cell immunity

(2008) Amr H Sawalha   AUTOIMMUNITY

Defective T-cell ERK signaling induces interferon-regulated gene expression and overexpression of methylation-sensitive genes similar to lupus patients

(2008) A H Sawalha et al.   GENES AND IMMUNITY