Physics of the Immune System I: From Repertoire to Function

FOCUS · Q36 · ID: 2154447

Presentations

  • Learning the shape of the immune and protein universe

    ORAL · Invited

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    Publication: M.N. Pun, A. Ivanov, Q. Bellamy, Z. Montague, C. LaMont, P. Bradley, J. Otwinowski, A. Nourmohammad (2022) Learning the shape of protein micro-environments with a holographic convolutional neural network. arXiv:2211.02936v1
    G.M. Visani, M.N. Pun, A. Nourmohammad (2022) Holographic-(V)AE: an end-to-end SO(3)-Equivariant (Variational) Autoencoder in Fourier Space. arXiv:2209.15567v2

    Presenters

    • Armita Nourmohammad

      University of Washington

    Authors

    • Armita Nourmohammad

      University of Washington

    • Michael N Pun

      University of Washington

    • Gian Marco Visani

      University of Washington

    • Andrew Ivanov

      University of Washington

    • Quinn Bellamy

      University of Washington

    • Zachary A Montague

      University of Washington

    • Colin LaMont

      Max Planck Institute for Dynamics and Self-Organization

    • Philip Bradley

      Fred Hutchinson Cancer Center

    • Jakub Otwinowski

      Dyno Therapeutics

    • Arman Angaji

      University of Cologne

    View abstract →

  • How different are self and nonself?

    ORAL

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    Publication: Mayer, A., Russo, C.J., Marcou, Q., Bialek, W. and Greenbaum, B.D., 2022. How different are self and nonself?. arXiv preprint arXiv:2212.12049.

    Presenters

    • Benjamin Greenbaum

      Memorial Sloan Kettering Cancer Center

    Authors

    • Benjamin Greenbaum

      Memorial Sloan Kettering Cancer Center

    • Andreas Mayer

      UCL, University College London

    • Christopher Joel Russo

      University of Chicago

    • Quentin Marcou

      Aix-Marseille Université

    • William S Bialek

      Princeton University

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  • Signatures of Functional Immune Responses to Acute and Chronic COVID-19 Infections

    ORAL

    –

    Presenters

    • Rhea M Grover

      University of California, Berkeley; University of Washington

    Authors

    • Rhea M Grover

      University of California, Berkeley; University of Washington

    • Zachary A Montague

      University of Washington

    • Assya Trofimov

      Fred Hutch Cancer Center; University of Washington

    • Andrew Baumgartner

      Institute for Systems Biology

    • Jennifer Hadlock

      Institute for Systems Biology

    • Armita Nourmohammad

      University of Washington

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  • Real-time immune recognition in a primary acute infection

    ORAL

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    Publication: R. Morán-Tovar and M. Lässig, Non-equilibrium antigen recognition in acute infections, arXiv, arXiv:2304.02794v3, 2023.

    Presenters

    • Roberto Morán-Tovar

      University of Cologne

    Authors

    • Roberto Morán-Tovar

      University of Cologne

    • Michael Lässig

      University of Cologne

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  • Computational HLA typing from repertoires

    ORAL

    –

    Publication: Planned paper

    Presenters

    • Maria Ruiz Ortega

      CNRS/ENS Paris

    Authors

    • Maria Ruiz Ortega

      CNRS/ENS Paris

    • Thierry Mora

      Ecole Normale Superieure de Paris

    • Aleksandra Walczak

      Ecole Normales Superieure de Paris

    • Mikhail Pogorelyy

      St. Jude Children's Research Hospital

    • Anastasia Minervina

      St. Jude Children's Research Hospital

    • Paul Thomas

      St. Jude Children's Research Hospital

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  • Computational detection of antigen-specific B-cell receptors

    ORAL

    –

    Presenters

    • Maria Francesca Abbate

      École normal supérieure Paris-Saclay

    Authors

    • Maria Francesca Abbate

      École normal supérieure Paris-Saclay

    • Aleksandra M Walczak

      CNRS, CNRS, LPENS

    • Thierry Mora

      LPENS, Ecole Normale Superieure, CNRS, CNRS, LPENS

    • Melody Shahsavarian

      Sanofi

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  • Binding affinity landscapes of broadly neutralising antibodies

    ORAL

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    Publication: 1. Phillips, A. M. et al. Binding affinity landscapes constrain the evolution of broadly neutralizing anti-influenza antibodies. eLife 10, e71393 (2021).
    2. Phillips, A. M. et al. Hierarchical sequence-affinity landscapes shape the evolution of breadth in an anti-influenza receptor binding site antibody. eLife 12, e83628 (2023).

    Presenters

    • Thomas Dupic

      Harvard

    Authors

    • Thomas Dupic

      Harvard

    • Angela M Phillips

      UCSF

    • Alief Moulana

      Harvard

    • Michael Desai

      Harvard

    • Katherine R Lawrence

      Harvard

    • Thierry Mora

      LPENS, Ecole Normale Superieure, CNRS, CNRS, LPENS

    • Aleksandra M Walczak

      CNRS, CNRS, LPENS

    View abstract →