DNA Mechanics and Gene Expression I

Presentations

• Engineering high-precision, dynamic genetic control systems via supercoiling-guided design

  ORAL · Invited

  March 7, 2023, 11:00 AM – March 7, 2023, 11:36 AM

  Presenters

  • Kate E Galloway

    Massachusetts Institute of Technology

  Authors

  • Kate E Galloway

    Massachusetts Institute of Technology

  View abstract →

• Using optogenetics to find the signal that maintains the DNA damage checkpoint

  ORAL

  March 7, 2023, 11:36 AM – March 7, 2023, 11:48 AM

  Presenters

  • Sahand Rahi

    Ecole Polytechnique Federale de Lausanne

  Authors

  • Sahand Rahi

    Ecole Polytechnique Federale de Lausanne

  • Marco Labagnara

    Ecole polytechnique federale de Lausanne

  View abstract →

• Rules of transcriptional bursting revealed by absolute quantification of nascent RNA in living fly embryos

  ORAL

  March 7, 2023, 11:48 AM – March 7, 2023, 12:00 PM

  Presenters

  • Po-Ta Chen

    Princeton University

  Authors

  • Po-Ta Chen

    Princeton University

  • Benjamin Zoller

    Princeton University

  • Michal Levo

    Princeton University

  • Thomas Gregor

    Princeton University

  View abstract →

• DNA supercoiling-transcription interplay in the presence of nucleosomes

  ORAL

  March 7, 2023, 12:00 PM – March 7, 2023, 12:12 PM

  Presenters

  • Shubham Tripathi

    Yale University

  Authors

  • Shubham Tripathi

    Yale University

  • Sumitabha Brahmachari

    Rice University

  • Jose N Onuchic

    Rice University

  • Herbert Levine

    Northeastern University

  View abstract →

• Self-assembly of DNA binding proteins can help control transcription initiation.

  ORAL

  March 7, 2023, 12:12 PM – March 7, 2023, 12:24 PM

  Presenters

  • Mankun Sang

    Johns Hopkins University

  Authors

  • Mankun Sang

    Johns Hopkins University

  • Margaret E Johnson

    Johns Hopkins University

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• Discovery of an endogenous cellular pathway that regulates transcriptional noise to promote cell-fate specificationLeor WeinbergerUniv. of California San Francisco (UCSF); Gladstone Institutes

  ORAL · Invited

  March 7, 2023, 12:24 PM – March 7, 2023, 1:00 PM

  Presenters

  • Leor Weinberger

    University of California, San Francisco

  Authors

  • Leor Weinberger

    University of California, San Francisco

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• Reconstructing Chromatin Structural Connectivity from Sparse Locus Tracking Experiments Using Polymer Dynamics Modeling

  ORAL

  March 7, 2023, 1:00 PM – March 7, 2023, 1:12 PM

  Presenters

  • Sayantan Dutta

    Stanford University

  Authors

  • Sayantan Dutta

    Stanford University

  • Jude Lee

    Stanford University

  • Liang-Fu Chen

    Stanford University

  • Alistair N Boettiger

    Stanford University

  • Andrew J Spakowitz

    Department of Chemical Engineering, Stanford University, Stanford University

  View abstract →

• A multicolour polymer model for the prediction of 3D structure and transcription in human chromatin

  ORAL

  March 7, 2023, 1:12 PM – March 7, 2023, 1:24 PM

  Presenters

  • Giuseppe Negro

    Univ of Bari

  Authors

  • Giuseppe Negro

    Univ of Bari

  • Massimiliano Semeraro

    Universita' di Bari & Sezione INFN di Bari

  • Antonio Suma

    Universita' di Bari & Sezione INFN di Bari

  • Giuseppe Gonnella

    Universita' di Bari & Sezione INFN di Bari

  • Peter R Cook

    University of Oxford

  • Davide Marenduzzo

    University of Edinburgh

  View abstract →

• Structural Integrity and Relaxation Dynamics of Axially Stressed Chromosomes

  ORAL

  March 7, 2023, 1:24 PM – March 7, 2023, 1:36 PM

  Presenters

  • Benjamin S Ruben

    Harvard University

  Authors

  • Sumitabha Brahmachari

    Rice University

  • Benjamin S Ruben

    Harvard University

  • Vinicius Contessoto

    Rice University

  • Ryan R Cheng

    Rice University

  • Antonio B Oliviera Jr.

    Rice University

  • Michele Di Pierro

    Northeastern University

  • Jose N Onuchic

    Rice University

  View abstract →

• Understanding the physical processes behind DNA-DNA proximity ligation assays

  ORAL

  March 7, 2023, 1:36 PM – March 7, 2023, 1:48 PM

  Presenters

  • Bernardo J Zubillaga Herrera

    Northeastern University, Boston University

  Authors

  • Bernardo J Zubillaga Herrera

    Northeastern University, Boston University

  • Amit Das

    Northeastern University

  • Ailun Wang

    Boston College

  • Michele Di Pierro

    Northeastern University

  View abstract →

• Engineering CRISPR/dCas based toggle switches in Escherichia coli

  ORAL

  March 7, 2023, 1:48 PM – March 7, 2023, 2:00 PM

  Publication: D. A. Specht, Y. Xu, and G. Lambert, "Massively parallel CRISPRi assays reveal concealed thermodynamic determinants of dCas12a binding" Proceedings of the National Academy of Sciences 117 (21), 11274-11282(2020)<br>Rouches, M.V., Xu, Y., Cortes, L.B.G. et al., "A plasmid system with tunable copy number". Nat Commun 13, 3908 (2022)

  Presenters

  • Yasu Xu

    Cornell University

  Authors

  • Yasu Xu

    Cornell University

  View abstract →