3D Nucleome Workshop

Aug 7, 2019, 1:30 AM → Aug 8, 2019, 6:00 PM America/New_York

3rd Floor Classroom (Flatiron Institute)

Mike Shelley, Olga Troyanskaya

The Center for Computational Biology at the Flatiron Institute in New York City will hold a two-day workshop, "The 3D Nucleome", intended to bring together researchers working in sometimes separated domains of study of the nucleus.

These domains include biophysics, computational biology, mathematical modeling, epigenomics, genetics, and molecular biology. We are hoping for an intimate environment that encourages the free exchange of ideas and discussions of ongoing work.

3D Participation List.pdf

Code of Conduct .pdf

Wednesday, August 7

8:00 AM → 8:45 AM BREAKFAST

8:45 AM → 9:00 AM Welcome Remarks by Mike Shelley

9:00 AM → 9:45 AM Mechanics, topology and geometry of mammalian chromosomes and nuclei

John Marko, Northwestern University

10:15 AM → 11:00 AM Cracking the Nuclear Codes: Finding Order in Chaos

Clodagh O'Shea, Salk Institute

11:00 AM → 11:30 AM BREAK

11:30 AM → 12:15 PM The mechanical genome

Helmut Schiessel, Leiden University

12:30 PM → 1:30 PM LUNCH

1:30 PM → 2:15 PM Disentangling the spatial and temporal dynamics of epigenetic domains in single cells

Bassem Al-Sady, University of California, San Francisco

2:30 PM → 3:15 PM Reconstitution of basic chromatin processes in cell free extracts: loop extrusion and DNA wetting

Jan Brugues, Max Planck Institute

3:30 PM → 4:00 PM BREAK

4:00 PM → 4:45 PM Detection of multiple levels of chromatin organization by TrAC-looping

Keji Zhao, National Institutes of Health

5:00 PM → 5:45 PM Large-scale numerical simulations of interphase chromatin hydrodynamics

David Saintillan, University of California, San Diego

6:30 PM → 9:30 PM DINNER

Benno Restaurant
Evelyn Hotel
7 E 27th Street

Thursday, August 8

8:30 AM → 9:00 AM BREAKFAST

9:00 AM → 9:45 AM The "self-stirred genome": dynamics and rheology

Alexandra Zidovska, New York University

10:00 AM → 10:45 AM Chromatin domains in transcriptional regulation

Bing Ren, University of California, San Diego

11:00 AM → 11:30 AM BREAK

11:30 AM → 12:15 PM Two major mechanisms of chromosome organization

Leonid Mirny, Massachusetts Institute of Technology

12:30 PM → 1:30 PM LUNCH

1:30 PM → 2:15 PM Acidity and hydrophobicity in transcription factor activation domains

Max Staller, Washington University St. Louis

3:00 PM → 3:45 PM Genomes in 3D: connections between structure and function

Geoff Fudenberg, University of California, San Francisco

4:00 PM → 6:00 PM RECEPTION