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This meeting took place in 2015



For a complete list of the meetings for the upcoming/current season, see our meeting list, or search for a meeting.

Epigenomics (Z2)


Organizer(s) Bing Ren and Daniel Zilberman
March 29—April 3, 2015
Keystone Resort • Keystone, Colorado USA
Discounted Abstract Deadline: Dec 3, 2014
Abstract Deadline: Jan 8, 2015
Scholarship Deadline: Dec 3, 2014
Discounted Registration Deadline: Jan 29, 2015

Sponsored by Constellation Pharmaceuticals and Curemark LLC

Joint Meeting: DNA Methylation (Z1)

Summary of Meeting:
Heritable, covalent modifications to DNA and histone proteins play an important role in an organism’s development and survival. Such epigenetic mechanisms have been increasingly linked to risks to a broad spectrum of human diseases. However, the exact function of epigenetic marks in development and disease pathogenesis remains to be better understood. With the help of recent technological advances in DNA sequencing technologies, epigenetic regulatory mechanisms have been investigated in a growing number of organisms at increasingly high resolution and scope. The results are an explosion in new genomic technologies, large-scale datasets and computational resources. The growing research field is now referred to as “epigenomics.” Epigenomics is still a young and growing field, and there are many challenges to investigators working on specific model organisms or disease who want to adopt this approach. This meeting is designed to capture the recent progress in the field in the same time bridge the technological gaps in the field, such as dataset availability, method adoption, data interpretation.

View Scholarships/Awards
No registration fees are used to fund entertainment or alcohol at this conference

Conference Program    Print  |   View meeting in 12 hr (am/pm) time


SUNDAY, MARCH 29

16:00—20:00
Arrival and Registration

Longs Peak Foyer
18:00—20:00
Welcome Mixer
No registration fees are used to fund alcohol served at this function.

Longs Peak Foyer

MONDAY, MARCH 30

07:00—08:00
Breakfast

Colorado Rockies Ballroom
08:00—09:00
Keynote Address (Joint)
Meeting has ended...abstracts no longer viewable online.

Longs/Grays Peaks
* Daniel Zilberman, University of California, Berkeley, USA

Adrian P. Bird, University of Edinburgh, UK
DNA Methylation and Other CpG Signaling

09:00—11:30
Genome-Wide DNA Methylation I (Joint)
Meeting has ended...abstracts no longer viewable online.

Longs/Grays Peaks
* Dirk Schübeler, Friedrich Miescher Institute for Biomedical Research, Switzerland

Alexander Meissner, Max Planck Institute for Molecular Genetics, Germany
DNA Methylation Dynamics in Development and Disease

Steven E. Jacobsen, University of California, Los Angeles, USA
DNA Methylation in Flowering Plants

Ryan Lister, Harry Perkins Institute of Medical Research, Australia
Short Talk: Large-Scale Interrogation of the Repressive Capacity of Human Promoter DNA Methylation by Genome-Wide Epigenomic Manipulation

Bradley R. Cairns, HHMI/University of Utah, USA
Chromatin-Transcription Dynamics in Developing Germline Stem Cells

Marie Classon, Genentech, Inc., USA
Short Talk: A Heterochromatic State Required for the Survival of Drug-Tolerant Cancer Cell Populations

09:40—10:00
Coffee Break

Longs Peak Foyer
11:30—13:00
Poster Setup

Colorado Rockies Ballroom
13:00—22:00
Poster Viewing

Colorado Rockies Ballroom
11:30—14:30
On Own for Lunch

14:30—16:30
Workshop 1: Roadmap Epigenomic Tutorial
Designed to highlight resources generated by the NIH Roadmap Epigenomic Project and related international human epigenome projects from 10 countries. Speakers include investigators currently participating in these large-scale projects.

Longs/Grays Peaks
* Ting Wang, Washington University, USA

16:30—17:00
Coffee Available

Longs Peak Foyer
17:00—19:15
Nucleosome Dynamics
Meeting has ended...abstracts no longer viewable online.

Longs/Grays Peaks
* Barbara J. Meyer, University of California, Berkeley, USA

Steven Henikoff, Fred Hutchinson Cancer Research Center, USA
Nucleosome Barriers to Transcription

Alicia N. Schep, Stanford University, USA
Short Talk: NucleoATAC: Structured ATAC-seq Signal Around Nucleosomes Enables High-Resolution Nucleosome Positioning

B. Franklin Pugh, Pennsylvania State University, USA
Genome-Wide Organization of Chromatin

Jeffrey N. McKnight, Fred Hutchinson Cancer Research Center, USA
Short Talk: Global Relocalization of the Rpd3 Histone Deacetylase Drives Quiescence Entry in S. cerevisiae

Jason D. Lieb, University of Chicago, USA
Evidence for Lamin A Function at Enhancers, with Implications for Hutchinson-Gilford Progeria


Following Session is for DNA Methylation (Z1)

17:00—19:15
DNA Methylation in Early Development
Meeting has ended...abstracts no longer viewable online.

Quandary Peak
* Anne C. Ferguson-Smith, University of Cambridge, UK

Wolf Reik, Babraham Institute, UK
Epigenetic Reprogramming in Mammalian Development

Matthew C. Lorincz, University of British Columbia, Canada
Impact of LTR Retrotransposons on the Transcriptome and Methylome in the Mouse Germline

Jonathan I. Gent, University of Georgia, USA
Short Talk: RNA-Directed DNA Methylation in Suppression of Intronic Transposons: Minimizing Collateral Damage on Host Gene Expression

Marius Walter, Institut Curie, France
Short Talk: Transposon Regulation upon Acute Loss of DNA Methylation

Vincent Colot, École Normale Supérieure, France
Molecular and Developmental Basis of Progressive DNA Methylation across Generations

19:15—20:15
Social Hour with Lite Bites
No registration fees are used to fund alcohol served at this function.

Colorado Rockies Ballroom
19:30—22:00
Poster Session 1

Colorado Rockies Ballroom

TUESDAY, MARCH 31

07:00—08:00
Breakfast

Colorado Rockies Ballroom
08:00—11:00
Functional Chromatin Domains
Meeting has ended...abstracts no longer viewable online.

Longs/Grays Peaks
* Bas van Steensel, Netherlands Cancer Institute, Netherlands

Barbara J. Meyer, University of California, Berkeley, USA
Condensin-Driven Remodeling of X-Chromosome Topology during Dosage Compensation

Elphège P. Nora, Gladstone Institute, USA
Short Talk: Life without CTCF (at Least for a Short While)

Sarah Elderkin, Babraham Institute, UK
Short Talk: Polycomb Repressive Complex PRC1 Spatially Constrains the Mouse Embryonic Stem Cell Genome to Regulate Pluripotency

Iestyn Whitehouse, Memorial Sloan Kettering Cancer Center, USA
Chromatin Assembly: A View from the Lagging Strand

Natasha E. Weiser, University of Michigan, USA
Short Talk: MORC-1 Regulates Endogenous Small RNAs, Chromatin Organization and Germline Immortality

Manolis Kellis, Massachusetts Institute of Technology / Broad Institute, USA
Interplay between Chromatin State, Regulator Binding and Regulatory Motifs


Following Session is for DNA Methylation (Z1)

08:00—11:45
Regulation and Reading of DNA Methylation
Meeting has ended...abstracts no longer viewable online.

Quandary Peak
* Margaret A. Goodell, Baylor College of Medicine, USA

Timothy H. Bestor, Columbia University College of Physicians and Surgeons, USA
FBXL10 Defends Polycomb-Bound Genes Against Hypermethylation

Xiaodong Cheng, Emory University, USA
Generation, Recognition and Erasure (GRE) of 5-Methylcytosine and its Oxidative Derivatives

Sriharsa Pradhan, New England Biolabs, USA
Regulation of DNMT1 Stability and Activity by Reader, Writer, Eraser and MicroRNA

Jiahao Huang, Babraham Institute, UK
Short Talk: Histone Modifiers Maintain Fidelity of de novo DNA Methylation in Growing Oocytes

Jafar Sharif, RIKEN IMS, Japan
Short Talk: Protracted NP95 Binding to Hemimethylated DNA Disrupts SETDB1-Mediated Proviral Silencing

Robert A. Martienssen, Cold Spring Harbor Laboratory, USA
Genome Reprogramming by Histone Variants and Small RNA

Manu J. Dubin, Gregor Mendel Institute, Austria
Short Talk: DNA Methylation Variation in Arabidopsis Has a Genetic Basis and Shows Evidence of Local Adaptation

09:20—09:40
Coffee Break

Longs Peak Foyer
11:00—13:00
Poster Setup

Colorado Rockies Ballroom
13:00—22:00
Poster Viewing

Colorado Rockies Ballroom
11:00—14:30
On Own for Lunch

16:30—17:00
Coffee Available

Longs Peak Foyer
17:00—19:15
Chromatin Regulation of Development
Meeting has ended...abstracts no longer viewable online.

Longs/Grays Peaks
* Manolis Kellis, Massachusetts Institute of Technology / Broad Institute, USA

Joanna Wysocka, Stanford University School of Medicine, USA
Retroelement Reactivation in Human Preimplantation Development

Christopher W. Ng, Massachusetts Institute of Technology, USA
Short Talk: Epigenetic Ensembles Presage Transcriptional Changes in Differentiation and Disease

Karine G. Le Roch, University of California, Riverside, USA
Short Talk: Association between Chromatin Structure, Gene Regulation and Pathogenicity in the Human Malaria Parasite, Plasmodium falciparum

Andrew Dimond, Babraham Institute, UK
Short Talk: Developmental Gene Promoters Establish Poised Enhancer Contacts in Embryonic Stem Cells

Jeremie F. Poschmann, Genome Institute of Singapore, Singapore
Short Talk: Large-Scale Mapping of Chromatin-Altering Polymorphisms Reveals Molecular Drivers of Human Disease

John A. Stamatoyannopoulos, University of Washington, USA
Encoding Epigenesis


Following Session is for DNA Methylation (Z1)

17:00—19:15
Intermediate and Allele-Specific DNA Methylation
Meeting has ended...abstracts no longer viewable online.

Quandary Peak
* Matthew C. Lorincz, University of British Columbia, Canada

Joseph F. Costello, University of California, San Francisco, USA
The Function of Intermediate DNA Methylation

Wenfeng An, South Dakota State University, USA
Short Talk: Retrotransposing Single-Copy Sequences into the Mouse Genome Reveals Sloping Shores: A Graded Influence of Hypomethylated CpG Islands on Flanking CpG Sites

Marisa S. Bartolomei, University of Pennsylvania Perelman School of Medicine, USA
Insulators, CTCF and DNA Methylation in Imprinted Gene Clusters

Anne C. Ferguson-Smith, University of Cambridge, UK
Genomic Imprinting and Parental-Origin Effects

Claude Becker, Max Planck Institute for Developmental Biology, Germany
Short Talk: Maternal Transmission of Increased Salt Stress Tolerance in Arabidopsis Is Linked to DNA Methylation

19:15—20:15
Social Hour with Lite Bites
No registration fees are used to fund alcohol served at this function.

Colorado Rockies Ballroom
19:30—22:00
Poster Session 2

Colorado Rockies Ballroom

WEDNESDAY, APRIL 1

07:00—08:00
Breakfast

Colorado Rockies Ballroom
08:00—11:15
Higher-Order Chromatin Organization
Meeting has ended...abstracts no longer viewable online.

Longs/Grays Peaks
* Erez Lieberman-Aiden, Baylor College of Medicine, USA

Noam Kaplan, University of Massachusetts Medical School, USA
How the 1D Genome Encodes 3D Topologically Associating Domains

Edith Heard, Institut Curie, France
The Dynamics of X-Chromosome Structure and Activity during X Inactivation

Suhas S.P. Rao, Baylor College of Medicine, USA
Short Talk: Extremely High-Resolution 3D Maps of Human and Mouse Genomes Across Lineages and during Differentiation Reveal Principles of Chromatin Looping

Bas van Steensel, Netherlands Cancer Institute, Netherlands
Mapping Genome – Nuclear Lamina Interactions in Single Cells

Peter Fraser, Florida State University, USA
Single Molecule Analyses of Chromosome Folding and Genome Organization by Single-Cell Hi-C

Robert A. Beagrie, MRC Clinical Sciences Centre, UK
Short Talk: Novel, Ligation-Free Method for Identifying Chromatin Interactions Genome-Wide


Following Session is for DNA Methylation (Z1)

08:00—11:45
Perturbations of DNA Methylation in Disease
Meeting has ended...abstracts no longer viewable online.

Quandary Peak
Margaret A. Goodell, Baylor College of Medicine, USA
DNMT3A in Normal and Malignant Hematopoiesis

Peter A. Jones, Van Andel Research Institute, USA
Cancer Therapy

Benjamin Leadem, Johns Hopkins University, USA
Short Talk: Novel Inhibitors of KDM5 Family Proteins Synergize with DNMT Inhibitors to Regulate Gene Expression and Inhibit Proliferation of Breast Cancer Cells

Jeanne F. Loring, The Scripps Research Institute, USA
Dynamics of DNA Methylation in Human Pluripotent Stem Cell Differentiation

Ralf Gilsbach, University of Freiburg, Germany
Short Talk: Stage-Specific Gene Expression Programs in Cardiomyocytes Rely on Dynamic CpG-Methylation or Polycomb Repressive Marks

Amos Tanay, Weizmann Institute, Israel
Single-Cell Transcriptional and Epigenomic Approaches to Complex Cell Populations

Yvette A. Luyten, New England Biolabs, USA
Short Talk: Bacterial DNA Methyltransferases: A New “Class” of Type I Restriction Modification Enzymes Utilizing Two Distinct DNA Methyltransferase Genes

09:20—09:40
Coffee Break

Longs Peak Foyer
11:15—13:00
Poster Setup

Colorado Rockies Ballroom
13:00—22:00
Poster Viewing

Colorado Rockies Ballroom
11:15—17:00
On Own for Lunch


Following Session is for DNA Methylation (Z1)

14:30—16:30
Workshop: Modeling DNA Methylation

Quandary Peak
* Amos Tanay, Weizmann Institute, Israel

* Remo Rohs, University of Southern California, USA
Modeling of the Effect of DNA Methylation on DNA Shape and Protein-DNA Binding

Michael M. Hoffman, University of Toronto, Canada
Transcription Factor Binding in an Expanded Epigenetic Alphabet

Önder Kartal, University of Zürich, Switzerland
An Information-Theoretic Approach to Discover Differential DNA Methylation in Plants Suggests that Diversity Is Highest in the CG Context

Fabian Müller, Max Planck Institute for Informatics, Germany
Computational Methods for the DEEP Characterization of DNA Methylation BLUEPRINTs

Yaping Liu, Massachusetts Institute of Technology, USA
meQTLFinder: A Bayesian Model to Detect meQTL by Using Chromatin States and Chromatin Interaction Prior Information

David Gokhman, Hebrew University of Jerusalem, Israel
Paleo-Epigenetics: Reconstructing the DNA Methylation Maps of Archaic Hominins

16:30—17:00
Coffee Available

Longs Peak Foyer
17:00—19:15
Small RNA
Meeting has ended...abstracts no longer viewable online.

Longs/Grays Peaks
* John L. Rinn, University of Colorado, Boulder, USA

Amy E. Pasquinelli, University of California, San Diego, USA
The Primary Target of let-7 MicroRNA

Haifan Lin, Yale University, USA
Multifaceted Roles of the Piwi-piRNA Pathway in Gene Regulation

Alla Grishok, Columbia University Medical Center, USA
Short Talk: Connecting Euchromatin and Endogenous RNAi in C. elegans

Sam (Guoping) Gu, Rutgers University, USA
Short Talk: siRNA-Mediated Chromatin Regulation and Multigenerational Homeostasis of Germline Gene Expression in C. elegans

Craig S. Pikaard, HHMI/Indiana University, USA
RNA Silencing and Epigenetic Inheritance


Following Session is for DNA Methylation (Z1)

17:00—19:15
DNA Methylation as a Biomarker
Meeting has ended...abstracts no longer viewable online.

Quandary Peak
* Peter A. Jones, Van Andel Research Institute, USA

Stephan Beck, University College London, UK
Insights from Methylome Analysis

Peter W. Laird, Van Andel Research Institute, USA
Cancer Methylomes

Michiel Vermeulen, Radboud University, Netherlands
Quantitative Interaction Proteomics for Epigenetics

Xueguang Sun, Zymo Research Corp, USA
Short Talk: Mirror Bisulfite Sequencing (Mirror-Seq): A Novel Sequencing Method for Genome-Wide Profiling of 5-Hydroxymethylcytosine with Single-Base Resolution

Shinji Maegawa, Temple University, USA
Short Talk: DNA Methylation Drift as a Marker of Lifespan in Mammals

19:15—20:15
Social Hour with Lite Bites
No registration fees are used to fund alcohol served at this function.

Colorado Rockies Ballroom
19:30—22:00
Poster Session 3

Colorado Rockies Ballroom

THURSDAY, APRIL 2

07:00—08:00
Breakfast

Colorado Rockies Ballroom
08:00—11:15
Genome-Wide DNA Methylation II (Joint)
Meeting has ended...abstracts no longer viewable online.

Longs/Grays Peaks
* Alexander Meissner, Max Planck Institute for Molecular Genetics, Germany

Joseph R. Ecker, The Salk Institute for Biological Studies, USA
Human Body Epigenome Maps Reveal Noncanonical DNA Methylation Variation

Bing Ren, Ludwig Institute for Cancer Research, USA
Integrative Analysis of Haplotype-Resolved Epigenomes across Human Tissues

Daniel Zilberman, University of California, Berkeley, USA
Molecular Co-Evolution of Genomes and Chromatin

Andrew G. Clark, Cornell University, USA
Short Talk: Analysis of Novel Marsupial-Specific Imprinted Genes and their DMRs in the Opossum, Monodelphis domestica

Camila O. dos Santos, Cold Spring Harbor Laboratory, USA
Short Talk: An Epigenetic Memory of Pregnancy in the Mouse Mammary Gland

Dirk Schübeler, Friedrich Miescher Institute for Biomedical Research, Switzerland
Sequence and Chromatin Determinants of DNA Methylation

09:40—10:00
Coffee Break

Longs Peak Foyer
11:15—14:30
On Own for Lunch

14:30—16:30
Workshop 2: ENCODE Datasets Tutorial

Longs/Grays Peaks
* Feng Yue, Pennsylvania State University, USA

16:30—17:00
Coffee Available

Longs Peak Foyer
17:00—19:00
Long Noncoding RNA
Meeting has ended...abstracts no longer viewable online.

Longs/Grays Peaks
* Amy E. Pasquinelli, University of California, San Diego, USA

John L. Rinn, University of Colorado, Boulder, USA
RNA-Binding Proteins Interact Specifically with Transposable Element Sequence in Human Genes

Jindan Yu, Northwestern University Feinberg School of Medicine, USA
Short Talk: LncRNA HOTAIR Enhances the Androgen Receptor-Mediated Transcriptional Program and Drives Castration-Resistant Prostate Cancer

L. Stirling Churchman, Harvard Medical School, USA
Short Talk: High-Resolution Architecture of Human Transcriptional Activity Revealed by Native Elongating Transcript Sequencing

Gilad Fuchs, Weizmann Institute of Science, Israel
Short Talk: Cotranscriptional Histone H2B Monoubiquitylation Is Tightly Coupled with RNA Polymerase II Elongation Rate

Mitchell Guttman, California Institute of Technology, USA
lncRNAs: Function and Mechanism in Controlling Cellular Identity


Following Session is for DNA Methylation (Z1)

17:00—19:00
DNA Methylation Turnover
Meeting has ended...abstracts no longer viewable online.

Quandary Peak
* Xiaodong Cheng, Emory University, USA

Frédéric L. Chedin, University of California, Davis, USA
Epigenomics Signatures of R-Loop Forming Regions

Chuan He, University of Chicago, USA
Genome-Wide Sequencing of 5hmC and 5fC

Salvatore Oliviero, Human Genetics Foundation, HuGeF, Italy
Short Talk: Single-Base Resolution Analysis of 5-Formyl and 5-Carboxyl Cytosine Reveals DNA Methylation/Demethylation Dynamics in the Mammalian Genome

19:00—19:15
Meeting Wrap-Up: Outcomes and Future Directions (Organizers)
Meeting has ended...abstracts no longer viewable online.

Longs/Grays Peak

Following Session is for DNA Methylation (Z1)

19:00—19:15
Meeting Wrap-Up: Outcomes and Future Directions (Organizers)
Meeting has ended...abstracts no longer viewable online.

Quandary Peak
19:15—20:15
Social Hour with Lite Bites
No registration fees are used to fund alcohol served at this function.

Colorado Rockies Ballroom
20:00—23:00
Entertainment
Entertainment is not subsidized by conference registration fees nor any U.S. federal government grants. Funding for this expense is provided by other revenue sources.

Colorado Rockies Ballroom

FRIDAY, APRIL 3

 
Departure


*Session Chair †Invited, not yet responded.



We gratefully acknowledge support for this conference from:


Directors' Fund


These generous unrestricted gifts allow our Directors to schedule meetings in a wide variety of important areas, many of which are in the early stages of research.

Click here to view all of the donors who support the Directors' Fund.



Keystone Symposia thanks our Sponsors for generously supporting this meeting:

Constellation Pharmaceuticals Curemark LLC

We gratefully acknowledge the generous grant for this conference provided by:


National Institutes of Health
Office of the Director (OD)

Grant No. 1R13HG008333-01

Funding for this conference was made possible (in part) by 1 R13 HG 008333 - 01 from National Human Genome Research Institute (NHGRI) and the Office of the Director, National Institutes of Health (OD/NIH). The views expressed in written conference materials or publications and by speakers and moderators do not necessarily reflect the official policies of the Department of Health and Human Services; nor does mention by trade names, commercial practices, or organizations imply endorsement by the U.S. Government.


We appreciate the organizations that provide Keystone Symposia with additional support, such as marketing and advertising:

S. Karger A.G. - Medical Epigenetics

Special thanks to the following for their support of Keystone Symposia initiatives to increase participation at this meeting by scientists from underrepresented backgrounds:


Click here to view more of these organizations


If your organization is interested in joining these entities in support of Keystone Symposia, please contact: Sarah Lavicka, Assistant Director of Development, Email: sarahl@keystonesymposia.org,
Phone:+1 970-262-2690

Click here for more information on Industry Support and Recognition Opportunities.

If you are interested in becoming an advertising/marketing in-kind partner, please contact:
Yvonne Psaila, Director, Marketing and Communications, Email: yvonnep@keystonesymposia.org,
Phone:+1 970-262-2676