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This meeting took place in 2020



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Gene Regulation: From Mechanisms to Disease (J3)


Organizer(s) Karen Adelman and Patrick Cramer
January 26—30, 2020
Keystone Resort • Keystone, CO USA
Discounted Abstract Deadline: Oct 1, 2019
Abstract Deadline: Oct 29, 2019
Scholarship Deadline: Oct 1, 2019
Discounted Registration Deadline: Nov 26, 2019

Sponsored by Moderna


Summary of Meeting:
Organismal development, homeostasis and healthy aging all rely on precise control of gene expression programs. Recent technological advances in structural biology, real-time imaging, and next generation sequencing have shed new light on decades-old questions about gene regulation, and we seek to highlight these advances. This meeting aims to bring together pioneers in cryoEM, single-cell microscopy, single cell sequencing and three-dimensional genome architecture, with leading experts in transcriptional regulation, to seed new collaborations and discoveries. This conference provides an ideal environment to foster interactions between transcriptional biologists and experts in single cell imaging and genomic approaches and spur conversations about how to interweave new techniques for structural biology with our growing appreciation that many critical interactions involve intrinsically disordered domains (which are by definition not well behaved in most structural approaches). Participants will attend sessions that critically evaluate the impact of genome organization on gene expression. The conference will also expose trainees to the best science possible and instill in them the enthusiasm we feel for the future of the field. Finally, pairing of this meeting with Cancer Epigenetics is ideal as the topics are inherently related. This allows our meeting to focus on underlying mechanisms and normal developmental systems, while enabling the audience to attend lectures in gene dysregulation in cancer. We plan two joint sessions to maximize interactions.

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No registration fees are used to fund entertainment or alcohol at this conference

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


The meeting will begin on Sunday, January 26 with registration from 16:00 to 20:00 and a welcome mixer from 18:00 to 20:00. Conference events conclude on Thursday, January 30 with a closing plenary session from 17:00 to 19:15, followed by a social hour and entertainment. We recommend return travel on Friday, January 31 in order to fully experience the meeting.

SUNDAY, JANUARY 26

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, JANUARY 27

07:00—08:00
Breakfast

Red Cloud/Shavano/Torreys
08:00—09:00
Welcome and Keynote Address (Joint)

Columbine Ballroom
* Karen Adelman, Harvard Medical School, USA

* Cigall Kadoch, Dana-Farber Cancer Institute, Harvard Medical School, USA

Shelley L. Berger, University of Pennsylvania, USA
Epigenetic Pathways as Targets in Human Cancer

09:00—11:00
Fundamentals of Gene Regulation (Joint)

Columbine Ballroom
* Liling Wan, University of Pennsylvania, USA

Eva Nogales, University of California, Berkeley, USA
Structural Insights into the Regulation of the Gene Silencer PRC2

Coffee Break

Patrick Cramer, Max Planck Institute for Biophysical Chemistry, Germany
Mechanisms of Chromatin Transcription

Dylan J. Taatjes, University of Colorado Boulder, USA
Selective Inhibition of Human CDK7 Reveals High-Confidence Targets and Suggests a New Model for TFIIH Function in Transcription

11:00—17:00
On Own for Lunch

11:00—13:00
Poster Setup

Red Cloud/Shavano/Torreys
13:00—22:00
Poster Viewing

Red Cloud/Shavano/Torreys
14:30—16:30
Workshop 1: Structure and Function of Chromatin

Quandary Peak
* Patrick Cramer, Max Planck Institute for Biophysical Chemistry, Germany

Ksenia Finogenova, Max-Planck Institute of Biochemistry, Germany
Structural Basis of Nucleosome Binding by PRC2 and Its Inhibition by H3K36 Methylation

François Robert, Institut de Recherches Cliniques de Montreal, Canada
Transcribed Chromatin, Rather Than RNA Polymerase II Itself, Recruits FACT to Active Genes

Jitendra Thakur, Fred Hutchinson Cancer Research Center, USA
Architectural RNA Is Required for Heterochromatin Organization

Gilad Yaakov, Weizmann Institute of Israel, Israel
A Novel Histone Molecular Timer Reveals Minute-Resolution Nucleosome Turnover

Keda Zhou, University of Colorado Boulder, USA
FACT Caught in the Act of Manipulating the Nucleosome

Giulia Cova, Max Planck Institute for Molecular Genetics, Germany
TAD-Shuffling at the FGF8 Locus Causes Split-Hand/Foot Malformation Type 3

Yuan He, Northwestern University, USA
Cryo-Electron Microscopy Structure of a Nucleosome-Bound SWI/SNF Chromatin Remodeling Complex

14:30—16:30
Workshop 1

Grays/Longs Peak
* Yael David, Memorial Sloan Kettering Cancer Center, USA

Alessandro Gardini, Wistar Institute, USA
A Role for Nuclear PP2A in Transcription Regulation

Ruhee Dere, Baylor College of Medicine, USA
KDM4A Regulates Microtubule Methylation and Genomic Instability

Gerard L. Brien, Smurfit Institute of Genetics, Ireland
Disruption of Development Enhancer and PRC2 Function by H3K27M in DIPG

Tharu M. Fernando, Genentech, Inc., USA
Characterization and Therapeutic Implications of SMARCA4 Mutations in Cancer

Noa Furth, Weizmann Institute of Science, Israel
The Combinatorial Epigenetic Landscape of High Grade Pediatric Gliomas in Single Molecule Resolution

Brian J. Abraham, St. Jude Children's Research Hospital, USA
Predicting Master Transcription Factors from Pan-Cancer Expression Data

Elizabeth Allene Martin, University of California San Francisco, USA
OGT, a Nutrient-Sensing Enzyme, Controls DNA Methylation in Mouse Embryonic Stem Cells

16:30—17:00
Coffee Available

Longs Peak Foyer
17:00—19:00
Imaging of Transcriptional Dynamics

Quandary Peak
* Karla M. Neugebauer, Yale University, USA

Ibrahim Cissé, Massachusetts Institute of Technology, USA
Super-Resolution Imaging of Transcription in Living Mammalian Cells

Danette L. Daniels, Promega Corporation, USA
Kinetic Monitoring of Protein Interactions and Targeted Degradation in Live Cells

Jennifer F. Kugel, University of Colorado Boulder, USA
Short Talk: Single-Molecule Studies Resolve Heterogeneity in the Activity of Transcribing Complexes to Reveal Steps in Transcription That Dictate the Activity of Pol II

Benjamin R. Sabari, University of Texas Southwestern Medical Center, USA
Short Talk: Enhancer Features that Drive Formation of Transcriptional Condensates

Michael S. Levine, Princeton University, USA
Visualizing Developmental Dynamics in Drosophila Embryos

17:00—19:15
Enhancer Structure in Cancer
This session will feature talks on enhancer structure, variants, function in relation to cancer mechanisms.

Grays/Longs Peak
* Asifa Akhtar, Max Planck Institute of Immunobiology and Epigenetics, Germany

Ashby Morrison, Stanford University, USA
Epigenetic Regulation of Carcinogen Susceptibility

Richard A. Young, Whitehead Institute for Biomedical Research, USA
Gene Dysregulation, Condensates and Drugs

Bin Wu, Agios Pharmaceuticals Inc, USA
Molecular Mechanisms Mediating Relapse Following Ivosidenib Monotherapy in Patients with IDH1-mutant Relapsed or Refractory Acute Myeloid Leukemia

Liling Wan, University of Pennsylvania, USA
Short Talk: Chromatin Reader Dysregulation in Cell Fate Control and Cancer

Lena Afeyan, Massachusetts Institute of Technology, USA
Short Talk: Formation and Regulation of Estrogen Receptor-Mediated Transcriptional Condensates in Breast Cancer

Lukas Chavez, University of California, San Diego, USA
Short Talk: Targeting of Tumors as Informed by Oncogenic 3D Genome Organization

19:00—20:00
Social Hour with Lite Bites
No registration fees are used to fund alcohol served at this function.

Red Cloud/Shavano/Torreys
19:30—22:00
Poster Session 1

Red Cloud/Shavano/Torreys

TUESDAY, JANUARY 28

07:00—08:00
Breakfast

Red Cloud/Shavano/Torreys
08:00—11:00
Epigenetic Modifications of Chromatin and RNA (Joint)

Columbine Ballroom
* Ali Shilatifard, Northwestern University, USA

Tony Kouzarides, University of Cambridge, UK
Modifications of RNA: Their Function and Role in Cancer

Asifa Akhtar, Max Planck Institute of Immunobiology and Epigenetics, Germany
Dosage Compensation of the X Chromosome: A Complex Epigenetic Assignment Involving Chromatin Regulators and lncRNAs

Coffee Break

Anne Brunet, Stanford University, USA
Epigenetic Regulation of Stem Cell Aging

Salvador Aznar Benitah, ICREA and Institute for Research in Biomedicine, Spain
Epigenetic Influence of Our (Fatty) Diet on Metastatic-Initiating Cells

Peter Hsu, University of Washington, USA
Short Talk: Structural Basis of H2B Ubiquitination-Dependent H3K4 Methylation by COMPASS

11:00—17:00
On Own for Lunch

11:00—13:00
Poster Setup

Red Cloud/Shavano/Torreys
13:00—22:00
Poster Viewing

Red Cloud/Shavano/Torreys
14:30—16:30
Career Roundtable
Interested participants must sign up at the registration desk on a first-come, first-serve basis. Maximum attendance: 60.

Castle Peaks I & II
Bin Wu, Agios Pharmaceuticals Inc, USA

Krista Lynn Bledsoe, Cell Press, USA

Senthilkumar Cinghu, NIEHS, National Institutes of Health, USA

Scott A. Armstrong, Dana-Farber Cancer Institute, USA

Yael David, Memorial Sloan Kettering Cancer Center, USA

Raphaël Rodriguez, Institut Curie, France

16:30—17:00
Coffee Available

Longs Peak Foyer
17:00—19:00
Coupling of Transcription and RNA Processing

Quandary Peak
* Alexander Stark, Research Institute of Molecular Pathology - IMP, Austria

Yongsheng Shi, University of California, Irvine, USA
Probing 3’ End Formation of Coding and Non Coding RNAs

Karla M. Neugebauer, Yale University, USA
Dynamics of Co-Transcriptional Splicing

Daisy Castillo-Guzman, University of California, Davis, USA
Short Talk: Uncovering Novel Roles for Splicing Factor SF3B1 in Transcription Dynamics and R-Loop Metabolism

Megan Insco, Boston Children's Hospital, USA
Short Talk: CDK13 Mutations Drive Melanoma via Accumulation of Prematurely Terminated Transcripts

Torben Heick Jensen, Aarhus Universitet, Denmark
Transcription Termination and Links to RNA Processing/Decay Pathways

17:00—19:00
Human Disease Models of Chromatin Regulation
This session will highlight the development of model systems for the study of chromatin regulatory genes in cancer.

Grays/Longs Peak
* Paola Grandi, Cellzome AG, a GSK Company, Germany

Hao Zhu, University of Texas Southwestern Medical Center, USA
Targeting Chromatin Remodeling Complexes for Tissue Regeneration

Paola Grandi, Cellzome AG, a GSK Company, Germany
Click Chemistry and Preclinical Evaluation of Targeted Epigenetic Therapies

Liis Uuskula-Reimand, SickKids Research Institute, Canada
Short Talk: Enhancer Function and Topoisomerase II beta in Hepatocellular Carcinoma

Nicholas C. Gomez, Rockefeller University, USA
Short Talk: Stem Cell Reprogramming during Oncogenesis

Raphaël Rodriguez, Institut Curie, France
Short Talk: CD44 Regulates Epigenetic Plasticity by Mediating Iron Endocytosis

19:00—20:00
Social Hour with Lite Bites
No registration fees are used to fund alcohol served at this function.

Red Cloud/Shavano/Torreys
19:30—22:00
Poster Session 2

Red Cloud/Shavano/Torreys

WEDNESDAY, JANUARY 29

07:00—08:00
Breakfast

Red Cloud/Shavano/Torreys
08:00—11:15
Communication between Promoters and Enhancers

Quandary Peak
* Torben Heick Jensen, Aarhus Universitet, Denmark

Geeta J. Narlikar, University of California, San Francisco, USA
Can Phase-Separation Explain the Biological Properties of Heterochromatin?

Steven L. McKnight, University of Texas Southwestern Medical Center, USA
Low Complexity Sequences in Gene Regulation

Coffee Break

Jesse M. Engreitz, Harvard University and Broad Institute, USA
Short Talk: Genome-Wide Maps of Enhancer-Gene Connections Link Immune Disease Risk Variants to Target Genes

R. Babak Faryabi, University of Pennsylvania, USA
Short Talk: Notch-Instructed 3D Cancer Genomes

Tom Owen-Hughes, University of Dundee, Scotland
Short Talk: Selective Enhancer Decommissioning Following Acute Depletion of the ARID1A Subunit of Mammalian SWI/SNF Complexes

Alexander Stark, Research Institute of Molecular Pathology - IMP, Austria
Decoding Regulation: Global Screens to Uncover How Sequence Dictates Gene Activity

Karen Adelman, Harvard Medical School, USA
Interactions Between Coding and Non-Coding RNA loci

08:00—11:00
Synthetic Lethal Vulnerabilities in Cancer
This session will highlight new studies identifying synthetic lethal targets across a range of cancers, and exploring small molecule/ degrader-based inhibition of these targets.

Grays/Longs Peak
* Adrian P. Bracken, Trinity College Dublin, Ireland

Ali Shilatifard, Northwestern University, USA
Principles of Epigenetics and Chromatin in Development and Human Disease

Scott A. Armstrong, Dana-Farber Cancer Institute, USA
Targeting Chromatin Complexes in Leukemia

Coffee Break

Christopher Vakoc, Cold Spring Harbor Laboratory, USA
Squamous Trans-Differentiation in Pancreatic Cancer

Tannishtha Reya, University of California, San Diego, USA
Stem Cell Signals in Cancer Heterogeneity and Therapy Resistance

Jeff Magee, Washington University, USA
Short Talk: KMT2C/MLL3 Deletions Convey a Selective Advantage to Multiply-Divided HSCs by Blunting Cytokine- and Stress-Induced Lineage Commitment

Jiangbin Ye, Stanford University, USA
Short Talk: Deciphering Warburg Effect: The Connection between Metabolism, Epigenetics and Tumor Differentiation

11:15—17:00
On Own for Lunch

11:15—13:00
Poster Setup

Red Cloud/Shavano/Torreys
13:00—22:00
Poster Viewing

Red Cloud/Shavano/Torreys
16:30—17:00
Coffee Available

Longs Peak Foyer
17:00—19:00
Defining Regulation in Single-Cell Cells

Quandary Peak
* Emma Farley, University of California, San Diego, USA

Rickard Sandberg, Karolinska Institutet, Sweden
Decoding Transcriptional Regulation and Kinetics Using Single-Cell Transcriptomics

William J. Greenleaf, Stanford University, USA
A Single Cell Framework for Multi-Omic Analysis of Disease Identifies Malignant Regulatory Signatures

Sarah Hainer, University of Pittsburgh, USA
Short Talk: Profiling of Pluripotency Factors in Single Cells and Early Embryos

17:00—19:00
Developmental Epigenetics and Transcription
Highlighting the interplay between chromatin regulatory complexes and transcription factors in development and cancer.

Grays/Longs Peak
* Alessandro Gardini, Wistar Institute, USA

Adrian P. Bracken, Trinity College Dublin, Ireland
PRC2 Complexes in Development and Disease

Marcus Buschbeck, Josep Carreras Leukaemia Research Institute, Spain
Histone Variants Regulate 3D Chromatin Architecture and the Inflammatory Response of Cancer Cells

Yael David, Memorial Sloan Kettering Cancer Center, USA
Revealing Cancer-Associated Epigenetic Events using Novel Chemical Tools

Siddhant U. Jain, University of Wisconsin-Madison, USA
Short Talk: Inhibition of PRC2 Activity by EZHIP and H3 K27M in High-Grade Pediatric Gliomas

19:00—20:00
Social Hour with Lite Bites
No registration fees are used to fund alcohol served at this function.

Red Cloud/Shavano/Torreys
19:30—22:00
Poster Session 3

Red Cloud/Shavano/Torreys

THURSDAY, JANUARY 30

07:00—08:00
Breakfast

Red Cloud/Shavano/Torreys
08:00—11:15
Gene Control in Development

Quandary Peak
* Michael S. Levine, Princeton University, USA

Emma Farley, University of California, San Diego, USA
Regulatory Principles Governing Enhancer Function in Development and Disease

François Fuks, Université Libre de Bruxelles, Belgium
Transcriptome-Wide Distribution and Function of RNA Modifications

Coffee Break

Robert A. Martienssen, Cold Spring Harbor Laboratory, USA
Small Non-Coding RNA in Replication and Quiescence

Laura A. Banaszynski, University of Texas Southwestern Medical Center, USA
Short Talk: Mechanisms of Enhancer Activation Using the Histone Variant H3.3

Wenqing Cai, Boston Children's Hospital, USA
Short Talk: Enhancer-Dependence of Cell-Type-Specific Gene Expression Increases with Developmental Age

Raja Jothi, NIEHS, National Institutes of Health, USA
Short Talk: Bivalent Chromatin Does Not Poise Genes for Rapid Activation

Kathrin Plath, University of California, Los Angeles, USA
A New Mode of Xist Action

08:00—11:00
Chromatin Regulatory Modulation: Novel Small Molecule-Based Approaches
This session will highlight new epigenetic strategies to treat cancers.

Grays/Longs Peak
* Jane A. Skok, New York University School of Medicine, USA

Eric R. Olson, Syros Pharmaceuticals, USA
Therapeutic Applications of Altering Tumor Cell Gene Expression

Rab K. Prinjha, GlaxoSmithKline, UK
Epigenetic Inhibition in Cancer: Emerging Strategies and Approaches

Coffee Break

Jane A. Skok, New York University School of Medicine, USA
CTCFL and its Impact on Gene Regulation and Interplay with CTCF Function

Daniel De Carvalho, University Health Network, Canada
Epigenetic Regulation of Retroelements as an Emerging Therapeutic Opportunity in Cancer

Allyson M. Freedy, Harvard University, USA
Short Talk: CRISPR-suppressor Scanning Reveals a Nonenzymatic Role of LSD1 in AML

Jacob G. Kirkland, Stanford University, USA
Short Talk: Chromatin Regulators Mediate Anthracycline Sensitivity in Breast Cancer

11:15—17:00
On Own for Lunch

14:30—16:30
Workshop 2: Dynamic Gene Regulation

Quandary Peak
* Jennifer F. Kugel, University of Colorado Boulder, USA

Alon Goren, University of California, San Diego, USA
The Histone Deacetylase SIRT6 Restrains Transcription Elongation via Promoter-Proximal Pausing

Gabriella E. Martyn, University of New South Wales, Australia
Revealing the Mechanism Behind Naturally Occurring Mutations which Elevate Fetal Hemoglobin

Kirstin Meyer, University of California, San Francisco, USA
Optogenetic Dissection of YAP Transcriptional Regulation

Linda Z. Penn, Princess Margaret Cancer Centre, Canada
Discovering the MYC Proteome Reveals Novel Mechanisms of Oncogenesis

Xavier J. Rambout, University of Rochester Medical Center, USA
Transcriptional Coactivator PGC-1α Contains a Novel CBP80-Binding Motif That Orchestrates Efficient Target-Gene Expression

Haoze Vincent Yu, University of Southern California, USA
Feed-Forward Pioneer Factor Activity Underlies Mammalian Mechanoreceptor Cell Differentiation

14:30—16:30
Workshop 2

Grays/Longs Peak
* Chao Lu, Columbia University, USA

SrinivasVinod Saladi, Harvard Medical School, USA
Revealing Oncogenic Role of ACTL6A, Subunit of SWI/SNF Chromatin Remodeling Complex in Squamous Cancers

Riyad N.H. Seervai, Baylor College of Medicine, USA
The Histone Methyltransferase SETD2 Is a Tumor Suppressor with Actin Lysine Methyltransferase Activity

Michelle M. Mitchener, Princeton University, USA
Biochemical and Cellular Libraries Reveal Cancer-Associated Histone Mutations that Perturb Nucleosome Structure

Adam D. Durbin, Dana-Farber Cancer Institute, USA
EP300 Controls the Oncogenic Enhancer Landscape of High-Risk Neuroblastoma

Chao Lu, Columbia University, USA
Combinatorial Targeting of Chromatin and Metabolism for Cancer Therapy

Bethany A. Buck-Koehntop, University of Utah, USA
Investigating the Methyl-CpG Binding Protein ZBTB38 in Mediating Epigenetic-Based Transcription in Cancer

Jarod Waybright, University of North Carolina at Chapel Hill, USA
Reader's Block: Development of Chemical Tools Targeting the Methyl-Lysine Reader MPP8

16:30—17:00
Coffee Available

Longs Peak Foyer
17:00—19:00
Higher Order Interactions in Transcription Regulation

Quandary Peak
Eileen E.M. Furlong, European Molecular Biology Laboratory, Germany
Enhancer Promoter Communication During Embryonic Development

Shasha Chong, University of California, Berkeley, USA
Dynamic and Selective Low-Complexity Domain Interactions Control Gene Transcription: A Single-Molecule Study

Valerio Orlando, King Abdullah University of Science and Technology, Saudi Arabia
Short Talk: L1 RNA Knockdown Averts Heterochromatin Loss and Premature Ageing Phenotypes

Clodagh C. O'Shea, The Salk Institute for Biological Studies, USA
Cracking the Nuclear Codes: Finding Order in Chaos

Aaron Johnson, University of Colorado School of Medicine, USA
Short Talk: RNA Matchmaking Remodels LncRNA Structure and Promotes PRC2 Activity

17:00—19:00
Chromatin Structure and Function in Cancer
This session will highlight novel advances in our understanding of chromatin structure and modifications in cancer.

Grays/Longs Peak
* Christopher Vakoc, Cold Spring Harbor Laboratory, USA

Luciano Di Croce, CRG - Center for Genomic Regulation, Spain
Molecular Mechanisms Governing Cell Identity, Differentiation and Cancer Processes

Jikui Song, University of California, Riverside, USA
Structural Studies in DNA Methylation and Links to Human Cancer

Agata E. Lemiesz, Rockefeller University, USA
Short Talk: Novel H2B “Oncohistones” Impact Cellular Differentiation and Signaling

Nazar Mashtalir, Dana-Farber Cancer Institute, USA
Short Talk: Mechanism of Cancer-Specific SWI/SNF Complex Targeting by the SS18-SSX Fusion Oncogene

19:00—19:15
Meeting Wrap-Up: Outcomes and Future Directions (Organizers)

Quandary Peak
19:00—19:15
Meeting Wrap-Up: Outcomes and Future Directions

Grays/Longs Peak
Christopher Vakoc†, Cold Spring Harbor Laboratory, USA

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

Red Cloud/Shavano/Torreys
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.

Red Cloud/Shavano/Torreys

FRIDAY, JANUARY 31

 
Departure


*Session Chair †Invited, not yet responded.



Keystone Symposia thanks our Sponsor(s) for generously supporting this meeting:

Moderna

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


National Institutes of Health

Grant No. 1R13HG010828-01

Funding for this conference was made possible (in part) by 1R13HG010828-01 from the National Institutes of Health. 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 gratefully acknowledge additional in-kind support for this conference from those foregoing speaker expense reimbursements:



Promega Corporation


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


Click here to view more of these organizations


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


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If your organization is interested in joining these entities in support of Keystone Symposia, please contact: Sarah Lavicka, Director of Corporate Relations, 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:
Nick Dua, Senior Director, Communications, Email: nickd@keystonesymposia.org,
Phone:+1 970-262-1179