Epigenome Mapping Centers

The Roadmap Epigenomics Program is an international collaboration.

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Participants & Projects:

Overview:

The Roadmap Epigenomics Program proposes to: (1) create an international committee; (2) develop standardized platforms, procedures, and reagents for epigenomics research; (3) conduct demonstration projects to evaluate how epigenomes change; (4) develop new technologies for single cell epigenomic analysis and in vivo imaging of epigenetic activity; and (5) create a public data resource to accelerate the application of epigenomics approaches.

Objectives:

Transforming biomedical research in the following ways:

  • Develop comprehensive reference epigenome maps
  • Develop new technologies for comprehensive epigenomic analyses
A series of five interrelated initiatives are currently being developed under this program.
See below for complete list of program participants. Click the title for more detailed information.

Funded Research

Computational Analyses Exploiting Reference Epigenomic Maps (R01) RFA-RM-14-001
PI Name Institution Name Title

FUREY, TERRENCE S. (contact)
SHEIKH, SHEHZAD Z.

 UNIV OF NORTH CAROLINA CHAPEL HILL Interpreting molecular role of DNA variants associated with Crohns Disease through integrative analysis of open chromatin, epigenome and transcriptome data in diverse and relevant tissues and cells

INCE, TAN A.

 UNIVERSITY OF MIAMI Computational and Biological Deconvolution of Epigenomic Datasets

JOHNSON, WILLIAM EVAN

 BOSTON UNIVERSITY MEDICAL CAMPUS Integrative analyses of reference epigenomic maps and applications

LI, ZHAOYU (contact)
ASMANN, YAN W.

 MAYO CLINIC JACKSONVILLE Building the Foundation of Epigenomics Roadmaps

LIU, CHUNYU

 UNIVERSITY OF ILLINOIS AT CHICAGO Integrating epigenomic maps to predict regulatory functions of genetic variants

NOBLE, WILLIAM STAFFORD

 UNIVERSITY OF WASHINGTON Machine learning methods to impute and annotate epigenomic maps

PRITCHARD, JONATHAN K

 STANFORD UNIVERSITY Computational methods for modeling lineage-specific gene regulation

REN, BING

 LUDWIG INSTITUTE FOR CANCER RES LTD Integrative Analysis of Haplotype-Resolved Human Epigenome Maps

WAGERS, AMY JO

 HARVARD UNIVERSITY Epigenomic drivers of human muscle progenitor cells in development and disease

WANG, TING

 WASHINGTON UNIVERSITY CHARTING THE EPIGENOMIC LANDSCAPE OF HUMAN TRANSPOSABLE ELEMENTS

XING, YI (contact)
HOFFMANN, ALEXANDER

 UNIVERSITY OF CALIFORNIA LOS ANGELES Epigenomic control of RNA splicing
Developing Tools and Technologies for Cell-type, Temporal, or Locus-specific Manipulation of the Epigenome (R01) RFA-RM-12-026
PI Name Institution Name Title

BLANCAFORT, PILAR (contact)
LISTER, RYAN

 UNIVERSITY OF WESTERN AUSTRALIA Precision engineering of DNA methylation patterns in the human genome

DURONIO, ROBERT J (contact)
MATERA, A. GREGORY
STRAHL, BRIAN D

 UNIV OF NORTH CAROLINA CHAPEL HILL Engineering histone genes to interrogate the epigenetic code in space and time

GERSBACH, CHARLES A (contact)
CRAWFORD, GREGORY E

 DUKE UNIVERSITY Engineering Targeted Epigenetic Modifiers for Precise Control of Gene Regulation

KOIDE, SHOHEI

 UNIVERSITY OF CHICAGO Genetically encoded designer inhibitors for functional epigenomics

KUHLMAN, BRIAN A (contact)
HAHN, KLAUS MICHAEL

 UNIV OF NORTH CAROLINA CHAPEL HILL Spatiotemporal Control of the Epigenome via Photoactivatable Nuclear Localization

LEE, JEANNIE T

 MASSACHUSETTS GENERAL HOSP The RNA-activation platform to treat X-linked disease in a locus-specific manner

LOMVARDAS, STAVROS (contact)
BARNEA, GILAD

 UNIVERSITY OF CALIFORNIA SAN FRANCISCO Controlling epigenetic states and nuclear architecture in the brain

MEISSNER, ALEXANDER

 HARVARD UNIVERSITY Generation and characterization of tools for target-specific de novo DNA methylat

TASIC, BOSILJKA (contact)
MADISEN, LINDA

 ALLEN INSTITUTE FOR BRAIN SCIENCE Temporal, cell type- and locus-specific epigenetic control in transgenic mice

WEISSMAN, JONATHAN S. (contact)
LIM, WENDELL A
QI, LEI STANLEY

 UNIVERSITY OF CALIFORNIA SAN FRANCISCO Harnessing CRISPR for Targeted and Inducible Epigenomic Reprogramming
Reference Epigenome Mapping Centers (U01) RFA-RM-07-013
PI Name Institution Name Title

BERNSTEIN, BRADLEY E (contact)
MEISSNER, ALEXANDER

 THE BROAD INSTITUTE Production sequencing of reference human epigenomes

COSTELLO, JOSEPH F (contact)
MARRA, MARCO ANTONIO

 UNIVERSITY OF CALIFORNIA SAN FRANCISCO Integrated Epigenetic Maps of Human Embryonic and Adult Cells

REN, BING

 LUDWIG INSTITUTE FOR CANCER RESEARCH The San Diego Epigenome Center

STAMATOYANNOPOULOS, JOHN

 UNIVERSITY OF WASHINGTON Northwest Reference Epigenome Mapping Center
Epigenomics of Human Health and Disease (R01) RFA-RM-08-017
PI Name Institution Name Title

BENNETT, DAVID A.

 RUSH UNIVERSITY MEDICAL CENTER Exploring the Role of the Brain Epigenome: Cognitive Decline and Life Experiences

COLEMAN, PAUL D.

 SUN HEALTH RESEARCH INSTITUTE DNA methylation in Alzheimer's disease and normally aged brain

CONNELLY, JESSICA J.

 UNIVERSITY OF VIRGINIA CHARLOTTESVILLE Epigenomics of Atherosclerosis

EINSTEIN, FRANCINE HUGHES (contact)
GREALLY, JOHN
MONTAGNA, CRISTINA

 YESHIVA UNIVERSITY Genome-wide DNA Methylation Profiles Associated with Abnormal Intrauterine Growth

FALLIN, MARGARET DANIELE (Contact)
FEINBERG, ANDREW P.

 JOHNS HOPKINS UNIVERSITY Environment, The Perinatal Epigenome, and Risk for Autism and Related Disorders

GIBBONS, GARY HUGH

 MOREHOUSE SCHOOL OF MEDICINE Vascular Epigenome Dynamics in African-American Hypertensives

HUANG, TIM H.-M.

 OHIO STATE UNIVERSITY Epigenomics of Bisphenol A Exposure and Disease Risk

KOHWI-SHIGEMATSU, TERUMI

 UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB Determinants for genome-wide epigenomics in metastatic breast cancer

LIU, YONGMEI

 WAKE FOREST UNIVERSITY HEALTH SCIENCES Epigenome-Wide Association Study of DNA Methylation and Atherosclerosis

MELTZER, STEPHEN J.

 JOHNS HOPKINS UNIVERSITY The temporal epigenomic program of Barrett's neoplastic progression

MERBS, SHANNATH L.

 JOHNS HOPKINS UNIVERSITY Pangenomic Analysis of DNA Methylation Marks in Glaucoma and Macular Degeneration

MILL, JONATHAN

 KING'S COLLEGE LONDON A multi-faceted approach to epigenomic profiling in Alzheimer's disorder

OPHOFF, ROEL A.

 UNIVERSITY OF CALIFORNIA LOS ANGELES Epigenetics and disease: the role of DNA methylation in schizophrenia susceptibility

PETRONIS, ART

 CENTRE FOR ADDICTION AND MENTAL HEALTH DNA METHYLOME ANALYSIS IN BIPOLAR DISORDER

PFEIFER, GERD P.

 CITY OF HOPE/BECKMAN RESEARCH INSTITUTE Aging and the unstable epigenome

ROSEN, EVAN D.

 BETH ISRAEL DEACONESS MEDICAL CENTER Epigenomics of Human Insulin Resistance

SCHWARTZ, DAVID ALBERT (contact)
COSGROVE, GREGORY P.
YANG, IVANA VERONA

 NATIONAL JEWISH HEALTH Asthma: An Epidemic Caused by Epigenetics?

SULLIVAN, KATHLEEN E.

 CHILDREN'S HOSPITAL OF PHILADELPHIA Epigenomics of SLE

SUSZTAK, KATALIN (contact)
GREALLY, JOHN

 YESHIVA UNIVERSITY Epigenetics Landscape of Chronic Kidney Disease

TYCKO, BENJAMIN (contact)
MAYEUX, RICHARD

 COLUMBIA UNIVERSITY HEALTH SCIENCES Epigenomics of Alzheimer's Disease

YOKOMORI, KYOKO

 UNIVERSITY OF CALIFORNIA IRVINE Epigenomic Analysis of Facioscapulohumeral Muscular Dystrophy

YOUNG, RICHARD

 WHITEHEAD INSTITUTE FOR BIOMEDICAL RES Epigenomic Mapping in Human Tumor Stem Cells
Epigenomics Data Analysis and Coordination Center – EDACC (U01) RFA-RM-07-014
PI Name Institution Name Title

BEAUDET, ARTHUR L.
MILOSAVLJEVIC, ALEKSANDAR (contact)

 BAYLOR COLLEGE OF MEDICINE Epigenomics Data Analysis and Coordination Center at Baylor College of Medicine
Technology Development in Epigenetics (R21) RFA-RM-07-012
PI Name Institution Name Title

BEDFORD, MARK T
GOZANI, OR P (contact)

 STANFORD UNIVERSITY Applying peptide and protein domain microarrays to epigenetic research

HANG, HOWARD C

 ROCKEFELLER UNIVERSITY Chemical Reporters for the Analysis of Lysine Methylation in Epigenetics

HENIKOFF, STEVEN

 FRED HUTCHINSON CANCER RESEARCH CENTER Genome-wide measurement of histone replacement rates: a new dimension in epigenom

KOIDE, SHOHEI

 UNIVERSITY OF CHICAGO Novel affinity reagents for epigenetics markers

LIU, RIHE

UNIVERSITY OF NORTH CAROLINA CHAPEL HILL Identification of the Interactome of Methylated Histones from Human Proteome
Technology Development in Epigenetics (R01) RFA-RM-07-011
PI Name Institution Name Title

CRAIGHEAD, HAROLD G
SOLOWAY, PAUL D (contact)

 CORNELL UNIVERSITY ITHACA Epigenomic analysis on a nanoscale device

MITRA, ROBI D

 WASHINGTON UNIVERSITY METHYLMAP: A TECHNOLOGY TO ANALYZE PROMOTER METHYLATION IN MICRODISSECTED CELLS

SHI, HUIDONG
ZHANG, KUN (contact)

 UNIVERSITY OF CALIFORNIA SAN DIEGO Genome-scale anaylsis of DNA methylation in CpG Islands with bisulfite sequencing

TACKETT, ALAN JACKSON (contact)
TAVERNA, SEAN D

 UNIVERSITY OF ARKANSAS MED SCIS LTL ROCK Development of technology for high resolution epigenetic profiling of chromatin
Discovery of Novel Epigenetic Marks in Mammalian Cells (R21) RFA-RM-07-016
PI Name Institution Name Title

CHEN, XIAN
STRAHL, BRIAN D (contact)

 UNIVERSITY OF NORTH CAROLINA CHAPEL HILL Identification of novel histone modifications in a model eukaryote

WARBURTON, PETER E

 MOUNT SINAI SCHOOL OF MEDICINE OF NYU Non-coding RNAs in the epigenetics of human centromere formation
Discovery of Novel Epigenetic Marks in Mammalian Cells (R01) RFA-RM-07-015
PI Name Institution Name Title

CHENG, XIAODONG

 EMORY UNIVERSITY Identification and characterization of novel epigenetic marks of non-histone prot

GRANT, PATRICK A

 UNIVERSITY OF VIRGINIA CHARLOTTESVILLE Characterization of a novel histone H3 phosphorylation mark in DNA replication

KATZ, RICHARD ALAN

 INSTITUTE FOR CANCER RESEARCH Discovery of Epigenetic Marks in Human Cells by High Throughput siRNA Screening

OETTINGER, MARJORIE A

 MASSACHUSETTS GENERAL HOSPITAL Is symmetrical dimethylation of Arginine 2 of Histone H3 used as an epigenetic si

TULIN, ALEXEI V
ZARET, KENNETH S (contact)

 INSTITUTE FOR CANCER RESEARCH Novel Epigenetic Marks in Mitosis

ZHAO, YINGMING

 UNIVERSITY OF TEXAS SW MED CTR/DALLAS Systematic screening for new histone marks
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