Genome Organization & Subnuclear Phenomena I: Organizational Principles

Presentations

• The three-dimensional architecture of the human genome: understanding the physical mechanisms controlling gene expression

  ORAL · Invited

  March 6, 2024, 3:00 PM – March 6, 2024, 3:36 PM

  Publication: "Interphase chromosomes of the Aedes aegypti mosquito are liquid crystalline and can sense
  mechanical cues," Nat. Commun. 14, art. no. 326 (2023), V.G. Contessoto, O. Dudchenko, E.L.
  Aiden, P.G. Wolynes, J.N. Onuchic and M. Di Pierro.
  
  "Uncovering the Statistical Physics of 3D Chromosomal Organization Using Data-Driven Modeling,"
  Curr. Opin. Struct. Biol. 75 , art. no. 102418 (2022), V.G. Contessoto, R. Cheng and J.N.
  Onuchic.
  
  "Exploring Chromosomal Structural Heterogeneity Across Multiple Cell Lines,"
  eLife 9, art. no. e60312 (2020), R.R. Cheng, V. Contessoto, E. Lieberman Aiden, P.G. Wolynes,
  M. Di Pierro and J.N. Onuchic.

  Presenters

  • Jose N Onuchic

    • Rice University

  Authors

  • Jose N Onuchic

    • Rice University

  View abstract →

• Machine learning-based parametrization of a chromatin polymer model

  ORAL

  March 6, 2024, 3:36 PM – March 6, 2024, 3:48 PM

  Publication: Machine learning-based parametrization of a chromatin polymer model (in preparation)

  Presenters

  • Eric Schultz

    • University of Chicago

  Authors

  • Eric Schultz

    • University of Chicago

  • Soren C Kyhl

    • University of Chicago

  • Rebecca Willett

    • University of Chicago

  • Juan J De Pablo

    • University of Chicago

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• From Effective Interactions Extracted Using Hi-C Data to Chromosome Structures in Conventional and Inverted Nuclei

  ORAL

  March 6, 2024, 3:48 PM – March 6, 2024, 4:00 PM

  Publication: PRX Life 1, 013010 (2023)

  Presenters

  • Sucheol Shin

    • University of Texas at Austin

  Authors

  • Sucheol Shin

    • University of Texas at Austin

  • Guang Shi

    • University of Texas at Austin
    • University of Illinois at Urbana-Champaign

  • Devarajan Thirumalai

    • University of Texas at Austin
    • Department of Chemistry and Physics, The University of Texas at Austin, Austin 78712
    • UT Austin

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• Illuminating the link between nuclear geometry and chromatin structure dynamics through 4D nucleus modeling

  ORAL

  March 6, 2024, 4:00 PM – March 6, 2024, 4:12 PM

  Publication: 4D Mesoscale liquid model of nucleus resolves chromatin's radial organization, https://doi.org/10.1101/2023.09.21.558819

  Presenters

  • Rabia Laghmach

    • Iowa State University

  Authors

  • Rabia Laghmach

    • Iowa State University

  • Michele Di Pierro

    • Northeastern University

  • Davit Potoyan

    • Iowa State University

  View abstract →

• Data-Driven Simulation of Chromatin Structure and the Epigenetic Code

  ORAL

  March 6, 2024, 4:12 PM – March 6, 2024, 4:24 PM

  Presenters

  • Soren C Kyhl

    • University of Chicago

  Authors

  • Soren C Kyhl

    • University of Chicago

  • Juan J De Pablo

    • University of Chicago

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• A wave pinning model for spread of chromosomal inactivation

  ORAL

  March 6, 2024, 4:24 PM – March 6, 2024, 4:36 PM

  Presenters

  • Shibashis Paul

    • University of Tennessee

  Authors

  • Shibashis Paul

    • University of Tennessee

  • Tian Hong

    • University of Tennessee, Knoxville

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• Activity-driven chromatin organization during interphase: compaction, segregation, and overlap suppression

  ORAL

  March 6, 2024, 4:36 PM – March 6, 2024, 4:48 PM

  Publication: Manuscript in preparation

  Presenters

  • Brian Chan

    • Duke University

  Authors

  • Brian Chan

    • Duke University

  • Michael Rubinstein

    • Duke University

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• Cohesin distribution encodes chromatin 3D organization via conserved-current loop extrusion

  ORAL

  March 6, 2024, 4:48 PM – March 6, 2024, 5:00 PM

  Publication: Tianyu Yuan, Hao Yan, Kevin C. Li, Ivan Surovtsev, Megan C. King, Simon G. J. Mochrie. Cohesin distribution alone predicts chromatin organization in yeast via conserved-current loop extrusion. bioRxiv 2023.10.05.560890; doi: https://doi.org/10.1101/2023.10.05.560890

  Presenters

  • Tianyu Yuan

    • Yale University

  Authors

  • Tianyu Yuan

    • Yale University

  • Hao Yan

    • Yale University

  • Kevin C Li

    • Yale University

  • Ivan Surovtsev

    • Yale University

  • Megan C King

    • Yale University

  • Simon G Mochrie

    • Yale University

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• Loop extrusion with dynamic barriers explains genome folding for long-lived cohesin mutants

  ORAL

  March 6, 2024, 5:00 PM – March 6, 2024, 5:12 PM

  Presenters

  • Hadi Rahmaninejad

    • Virginia Tech
    • University of Southern California

  Authors

  • Hadi Rahmaninejad

    • Virginia Tech
    • University of Southern California

  • Maxime Tortora

    • University of Southern California

  • Geoffrey Fudenberg

    • University of Southern California

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• Polymer loop extrusion with motor-motor bypassing can explain mitotic chromosome elasticity

  ORAL

  March 6, 2024, 5:12 PM – March 6, 2024, 5:24 PM

  Presenters

  • Edward J Banigan

    • Massachusetts Institute of Technology

  Authors

  • Edward J Banigan

    • Massachusetts Institute of Technology

  • John F Marko

    • Northwestern University

  • Leonid A Mirny

    • Massachusetts Institute of Technology MIT

  View abstract →