Monocyte enhancers are highly altered in systemic lupus erythematosus

The DNA methylation signature of human TCRαβ+CD4−CD8− double negative T cells reveals CG demethylation and a unique epigenetic architecture permissive to a broad stimulatory immune response

(2015) Paul A. Renauer et al.   CLINICAL IMMUNOLOGY

Interferon regulatory factor 1 and histone H4 acetylation in systemic lupus erythematosus

(2015) Yiu Tak Leung et al.   Epigenetics

Integrative analysis of 111 reference human epigenomes

(2015) Anshul Kundaje et al.   NATURE

Interferon Regulatory Factor 1 Marks Activated Genes and Can Induce Target Gene Expression in Systemic Lupus Erythematosus

(2015) Zhe Zhang et al.   Arthritis & Rheumatology

Tissue-Resident Macrophage Enhancer Landscapes Are Shaped by the Local Microenvironment

(2014) Yonit Lavin et al.   CELL

Distinct structural transitions of chromatin topological domains correlate with coordinated hormone-induced gene regulation

(2014) François Le Dily et al.   GENES & DEVELOPMENT

DNA methylation and mRNA and microRNA expression of SLE CD4+ T cells correlate with disease phenotype

(2014) Ming Zhao et al.   JOURNAL OF AUTOIMMUNITY

Polarization of Primary Human Monocytes by IFN-  Induces Chromatin Changes and Recruits RNA Pol II to the TNF-  Promoter

(2014) S. Garrett et al.   JOURNAL OF IMMUNOLOGY

Genetic and epigenetic fine mapping of causal autoimmune disease variants

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

UniPROBE, update 2015: new tools and content for the online database of protein-binding microarray data on protein–DNA interactions

(2014) Maxwell A. Hume et al.   NUCLEIC ACIDS RESEARCH

The SLE Transcriptome Exhibits Evidence of Chronic Endotoxin Exposure and Has Widespread Dysregulation of Non-Coding and Coding RNAs

(2014) Lihua Shi et al.   PLoS One

Stat3 promotes IL-10 expression in lupus T cells throughtrans-activation and chromatin remodeling

(2014) Christian M. Hedrich et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Diet Influences Expression of Autoimmune-Associated Genes and Disease Severity by Epigenetic Mechanisms in a Transgenic Mouse Model of Lupus

(2013) Faith M. Strickland et al.   ARTHRITIS AND RHEUMATISM

Helper T-cell identity and evolution of differential transcriptomes and epigenomes

(2013) Golnaz Vahedi et al.   IMMUNOLOGICAL REVIEWS

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

Impact of systemic lupus erythematosus on burden of illness and work productivity in the United States

(2013) C Garris et al.   LUPUS

Remodeling of the Enhancer Landscape during Macrophage Activation Is Coupled to Enhancer Transcription

(2013) Minna U. Kaikkonen et al.   MOLECULAR CELL

Cytokine Induced Phenotypic and Epigenetic Signatures Are Key to Establishing Specific Macrophage Phenotypes

(2013) Nicolai A. Kittan et al.   PLoS One

Genome-Wide DNA Methylation Analysis of Systemic Lupus Erythematosus Reveals Persistent Hypomethylation of Interferon Genes and Compositional Changes to CD4+ T-cell Populations

(2013) Devin M. Absher et al.   PLoS Genetics

More help than hindrance

(2013) Cecilia Ballaré et al.   Nucleus

Healthcare utilization and cost of systemic lupus erythematosus in a US managed care health plan

(2013) Cindy Garris et al.   JOURNAL OF MEDICAL ECONOMICS

Dynamic epigenetic enhancer signatures reveal key transcription factors associated with monocytic differentiation states

(2012) T.-H. Pham et al.   BLOOD

STATs Shape the Active Enhancer Landscape of T Cell Populations

(2012) Golnaz Vahedi et al.   CELL

The histone H3 Lys 27 demethylase JMJD3 regulates gene expression by impacting transcriptional elongation

(2012) S. Chen et al.   GENES & DEVELOPMENT

A High-Throughput Chromatin Immunoprecipitation Approach Reveals Principles of Dynamic Gene Regulation in Mammals

(2012) Manuel Garber et al.   MOLECULAR CELL

Nucleosome-Driven Transcription Factor Binding and Gene Regulation

(2012) Cecilia Ballaré et al.   MOLECULAR CELL

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Genome-wide analysis of interferon regulatory factor I binding in primary human monocytes

(2011) Lihua Shi et al.   GENE

Pioneer transcription factors: establishing competence for gene expression

(2011) K. S. Zaret et al.   GENES & DEVELOPMENT

Monocyte polarization: the relationship of genome-wide changes in H4 acetylation with polarization

(2011) Z Zhang et al.   GENES AND IMMUNITY

Analysis of associations between the patterns of global DNA hypomethylation and expression of DNA methyltransferase in patients with systemic lupus erythematosus

(2011) Xiaohua Zhu et al.   INTERNATIONAL JOURNAL OF DERMATOLOGY

Epigenetics and SLE: RFX1 downregulation causes CD11a and CD70 overexpression by altering epigenetic modifications in lupus CD4+ T cells

(2010) Ming Zhao et al.   JOURNAL OF AUTOIMMUNITY

Sp1 Regulates Chromatin Looping between an Intronic Enhancer and Distal Promoter of the Human Heme Oxygenase-1 Gene in Renal Cells

(2010) Jessy Deshane et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

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 Jmjd3-Irf4 axis regulates M2 macrophage polarization and host responses against helminth infection

(2010) Takashi Satoh et al.   NATURE IMMUNOLOGY

Jmjd3 contributes to the control of gene expression in LPS-activated macrophages

(2009) Francesca De Santa et al.   EMBO JOURNAL

Global H4 acetylation analysis by ChIP-chip in systemic lupus erythematosus monocytes

(2009) Z Zhang et al.   GENES AND IMMUNITY

IFN Regulatory Factor 4 Regulates the Expression of a Subset of Th2 Cytokines

(2009) A.-N. N. Ahyi et al.   JOURNAL OF IMMUNOLOGY

Aberrant T cell ERK pathway signaling and chromatin structure in lupus

(2008) Gabriela Gorelik et al.   AUTOIMMUNITY REVIEWS

LPS and Poly I:C Induce Chromatin Modifications at a Novel Upstream Region of the IL-23 p19 Promoter

(2008) Stacey Garrett et al.   INFLAMMATION