Lipid-Induced Epigenomic Changes in Human Macrophages Identify a Coronary Artery Disease-Associated Variant that Regulates PPAP2B Expression through Altered C/EBP-Beta Binding

Arguing the Case for the Autotaxin–Lysophosphatidic Acid–Lipid Phosphate Phosphatase 3-Signaling Nexus in the Development and Complications of Atherosclerosis

(2014) Susan S. Smyth et al.   ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY

PeaKDEck: a kernel density estimator-based peak calling program for DNaseI-seq data

(2014) Michael T. McCarthy et al.   BIOINFORMATICS

Nucleosome positioning and histone modifications define relationships between regulatory elements and nearby gene expression in breast epithelial cells

(2014) Suhn Rhie et al.   BMC GENOMICS

Atherosclerotic Plaque Destabilization

(2014) Carlos Silvestre-Roig et al.   CIRCULATION RESEARCH

The Autotaxin-LPA Axis Emerges as a Novel Regulator of Lymphocyte Homing and Inflammation

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

An atlas of active enhancers across human cell types and tissues

(2014) Robin Andersson et al.   NATURE

Transcriptional enhancers: from properties to genome-wide predictions

(2014) Daria Shlyueva et al.   NATURE REVIEWS GENETICS

Coronary Heart Disease-Associated Variation in TCF21 Disrupts a miR-224 Binding Site and miRNA-Mediated Regulation

(2014) Clint L. Miller et al.   PLoS Genetics

Super-Enhancers in the Control of Cell Identity and Disease

(2013) Denes Hnisz et al.   CELL

Rapid and Pervasive Changes in Genome-wide Enhancer Usage during Mammalian Development

(2013) Alex S. Nord et al.   CELL

Nuclear Factor (Erythroid-Derived 2)-Like-2 Factor (Nrf2), a Key Regulator of the Antioxidant Response to Protect Against Atherosclerosis and Nonalcoholic Steatohepatitis

(2013) Anisha A. Gupte et al.   Current Diabetes Reports

Sphingosine 1-phosphate signalling

(2013) K. Mendelson et al.   DEVELOPMENT

Maps of open chromatin highlight cell type-restricted patterns of regulatory sequence variation at hematological trait loci

(2013) D. S. Paul et al.   GENOME RESEARCH

A dynamic H3K27ac signature identifies VEGFA-stimulated endothelial enhancers and requires EP300 activity

(2013) B. Zhang et al.   GENOME RESEARCH

Mechanism of rapid elimination of lysophosphatidic acid and related lipids from the circulation of mice

(2013) Abdel K. Salous et al.   JOURNAL OF LIPID RESEARCH

Roles Nrf2 Plays in Myeloid Cells and Related Disorders

(2013) Eri Kobayashi et al.   Oxidative Medicine and Cellular Longevity

Molecular Biology of Atherosclerosis

(2013) Paul N. Hopkins   PHYSIOLOGICAL REVIEWS

diffReps: Detecting Differential Chromatin Modification Sites from ChIP-seq Data with Biological Replicates

(2013) Li Shen et al.   PLoS One

Functional IL6R 358Ala Allele Impairs Classical IL-6 Receptor Signaling and Influences Risk of Diverse Inflammatory Diseases

(2013) Ricardo C. Ferreira et al.   PLoS Genetics

Animal Models of Atherosclerosis

(2012) Godfrey S. Getz et al.   ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY

Lipid Phosphate Phosphatase 3 Negatively Regulates Smooth Muscle Cell Phenotypic Modulation to Limit Intimal Hyperplasia

(2012) Manikandan Panchatcharam et al.   ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY

Lipid phosphate phosphatase (LPP3) and vascular development

(2012) H. Ren et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR AND CELL BIOLOGY OF LIPIDS

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

(2012) T.-H. Pham et al.   BLOOD

Lysophosphatidic acid in atherosclerotic diseases

(2012) Andreas Schober et al.   BRITISH JOURNAL OF PHARMACOLOGY

Regulation of C/EBPβ and resulting functions in cells of the monocytic lineage

(2012) René Huber et al.   CELLULAR SIGNALLING

CCAAT/Enhancer-binding Protein β (C/EBPβ) Expression Regulates Dietary-induced Inflammation in Macrophages and Adipose Tissue in Mice

(2012) Shaikh M. Rahman et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Interleukin-6 receptor pathways in coronary heart disease: a collaborative meta-analysis of 82 studies

(2012)   LANCET

Nuclear receptor mediated mechanisms of macrophage cholesterol metabolism

(2012) Zsuzsanna S. Nagy et al.   MOLECULAR AND CELLULAR ENDOCRINOLOGY

Autotaxin and Its Product Lysophosphatidic Acid Suppress Brown Adipose Differentiation and Promote Diet-Induced Obesity in Mice

(2012) Lorenzo Federico et al.   MOLECULAR ENDOCRINOLOGY

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

An integrated map of genetic variation from 1,092 human genomes

(2012)   NATURE

Interpreting noncoding genetic variation in complex traits and human disease

(2012) Lucas D Ward et al.   NATURE BIOTECHNOLOGY

Chromatin marks identify critical cell types for fine mapping complex trait variants

(2012) Gosia Trynka et al.   NATURE GENETICS

Using formaldehyde-assisted isolation of regulatory elements (FAIRE) to isolate active regulatory DNA

(2012) Jeremy M Simon et al.   Nature Protocols

Nuclear Hormone Receptors Enable Macrophages and Dendritic Cells to Sense Their Lipid Environment and Shape Their Immune Response

(2012) Laszlo Nagy et al.   PHYSIOLOGICAL REVIEWS

Systematic Localization of Common Disease-Associated Variation in Regulatory DNA

(2012) M. T. Maurano et al.   SCIENCE

Comparison of triple quadrupole and high-resolution TOF-MS for quantification of peptides

(2012) Lieve Dillen et al.   Bioanalysis

Macrophages in the Pathogenesis of Atherosclerosis

(2011) Kathryn J. Moore et al.   CELL

Genome-Wide Association Study for Coronary Artery Calcification With Follow-Up in Myocardial Infarction

(2011) Christopher J. O'Donnell et al.   CIRCULATION

A Genome-Wide Association Study Identifies LIPA as a Susceptibility Gene for Coronary Artery Disease

(2011) Philipp S. Wild et al.   Circulation-Cardiovascular Genetics

Comparative Lipidomics Profiling of Human Atherosclerotic Plaques

(2011) Christin Stegemann et al.   Circulation-Cardiovascular Genetics

Extensive chromatin remodelling and establishment of transcription factor ‘hotspots’ during early adipogenesis

(2011) Rasmus Siersbaek et al.   EMBO JOURNAL

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity

(2011) L. Song et al.   GENOME RESEARCH

Expression of LPP3 in Bergmann glia is required for proper cerebellar sphingosine-1-phosphate metabolism/signaling and development

(2011) Alejandro López-Juárez et al.   GLIA

NF-κB Regulates MICA Gene Transcription in Endothelial Cell through a Genetically Inhibitable Control Site

(2011) Da Lin et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Lipid phosphate phosphatase 3 enables efficient thymic egress

(2011) Béatrice Bréart et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Transcription Factor AP1 Potentiates Chromatin Accessibility and Glucocorticoid Receptor Binding

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

9p21 DNA variants associated with coronary artery disease impair interferon-γ signalling response

(2011) Olivier Harismendy et al.   NATURE

Large-scale association analysis identifies 13 new susceptibility loci for coronary artery disease

(2011) Heribert Schunkert et al.   NATURE GENETICS

A genome-wide association study in Europeans and South Asians identifies five new loci for coronary artery disease

(2011) John F Peden et al.   NATURE GENETICS

Chromatin accessibility pre-determines glucocorticoid receptor binding patterns

(2011) Sam John et al.   NATURE GENETICS

The immune system in atherosclerosis

(2011) Göran K Hansson et al.   NATURE IMMUNOLOGY

HaploReg: a resource for exploring chromatin states, conservation, and regulatory motif alterations within sets of genetically linked variants

(2011) L. D. Ward et al.   NUCLEIC ACIDS RESEARCH

Global Mapping of Cell Type–Specific Open Chromatin by FAIRE-seq Reveals the Regulatory Role of the NFI Family in Adipocyte Differentiation

(2011) Hironori Waki et al.   PLoS Genetics

PBX1 Genomic Pioneer Function Drives ERα Signaling Underlying Progression in Breast Cancer

(2011) Luca Magnani et al.   PLoS Genetics

Cistrome: an integrative platform for transcriptional regulation studies

(2011) Tao Liu et al.   GENOME BIOLOGY

Atherosclerotic Lesion Progression Changes Lysophosphatidic Acid Homeostasis to Favor its Accumulation

(2010) Martine Bot et al.   AMERICAN JOURNAL OF PATHOLOGY

Sphingosine-1-Phosphate Receptor-2 Function in Myeloid Cells Regulates Vascular Inflammation and Atherosclerosis

(2010) Athanasia Skoura et al.   ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY

Genome-wide association study identifies a new locus for coronary artery disease on chromosome 10p11.23

(2010) J. Erdmann et al.   EUROPEAN HEART JOURNAL

Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads

(2010) G. Lunter et al.   GENOME RESEARCH

Lipid Phosphate Phosphatase 3 Stabilization of  -Catenin Induces Endothelial Cell Migration and Formation of Branching Point Structures

(2010) J. O. Humtsoe et al.   MOLECULAR AND CELLULAR BIOLOGY

From noncoding variant to phenotype via SORT1 at the 1p13 cholesterol locus

(2010) Kiran Musunuru et al.   NATURE

GREAT improves functional interpretation of cis-regulatory regions

(2010) Cory Y McLean et al.   NATURE BIOTECHNOLOGY

A map of open chromatin in human pancreatic islets

(2010) Kyle J Gaulton et al.   NATURE GENETICS

Histone H3K27ac separates active from poised enhancers and predicts developmental state

(2010) M. P. Creyghton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

CEAS: cis-regulatory element annotation system

(2009) Hyunjin Shin et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Genome-wide association of early-onset myocardial infarction with single nucleotide polymorphisms and copy number variants

(2009) Sekar Kathiresan et al.   NATURE GENETICS

Lipid phosphate phosphatases form homo- and hetero-oligomers: catalytic competency, subcellular distribution and function

(2008) Jaclyn S. Long et al.   BIOCHEMICAL JOURNAL

F-Seq: a feature density estimator for high-throughput sequence tags

(2008) A. P. Boyle et al.   BIOINFORMATICS

lumi: a pipeline for processing Illumina microarray

(2008) P. Du et al.   BIOINFORMATICS

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY