Hierarchical Models for Omics Data

Presentations

• Fibration symmetries of integrated bio-network in a hypergraph representation of E.coli.

  ORAL

  March 14, 2022, 4:00 PM – March 14, 2022, 4:12 PM

  Presenters

  • Kuang Liu

    The City College of New York

  Authors

  • Kuang Liu

    The City College of New York

  • Luis Alvarez

    The City College of New York

  • Stefan Wuchty

    University of Miami

  • Hernan A Makse

    The City College of New York

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• Functional analysis of metabolism: a global approach unravels fluxes and protein allocation in E. coli

  ORAL

  March 14, 2022, 4:12 PM – March 14, 2022, 4:24 PM

  Presenters

  • Matteo Mori

    University of California, San Diego

  Authors

  • Matteo Mori

    University of California, San Diego

  • Chuankai Cheng

    University of Southern California

  • Terence T Hwa

    University of California, San Diego, UCSD

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• Mechanism-based disease similarity: with random walks starting from a set of disease genes, traveling through the protein-protein interaction network, and then back.

  ORAL · Invited

  March 14, 2022, 4:24 PM – March 14, 2022, 5:00 PM

  Publication: Robust and accurate data enrichment statistics via distribution function of sum of weights , Aleksandar Stojmirovi´c and Yi-Kuo Yu, Bioinformatics, 26, 2752-2759 (2010).<br>Information Flow in Interaction Networks II: Channels, Path Lengths, and Potentials, Aleksandar Stojmirovi´c and Yi-Kuo Yu, J. Comp. Biol., 19, 379-403 (2012).<br>Relating diseases by integrating gene associations and information flow through protein interaction network, Mehdi B. Hamaneh and Yi-Kuo Yu, PLoS One, 9, e110936 (2014).

  Presenters

  • Yikuo Yu

    National Institutes of Health - NIH

  Authors

  • Yikuo Yu

    National Institutes of Health - NIH

  • Mehdi B Hamaneh

    NCBI/NLM/NIH

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• Soft coral network diversity

  ORAL

  March 14, 2022, 5:00 PM – March 14, 2022, 5:12 PM

  Publication: A. Radja and N. Rodriguez. "A model for Sea fan and Gorgonian network diversity" (in preparation)

  Presenters

  • Natalia Rodriguez

    Mount Sinai Hospital

  Authors

  • Natalia Rodriguez

    Mount Sinai Hospital

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• Principles of gene regulation quantitatively connect DNA to RNA and proteins in bacteria

  ORAL

  March 14, 2022, 5:12 PM – March 14, 2022, 5:24 PM

  Publication: Rohan Balakrishnan*, Matteo Mori*, Igor Segota, Zhongge Zhang, Ruedi Aebersold, Christina Ludwig, Terence Hwa. Principles of gene regulation quantitatively connect DNA to RNA and proteins in bacteria. bioRxiv preprint: https://doi.org/10.1101/2021.05.24.445329

  Presenters

  • Rohan Balakrishnan

    University of California, San Diego, UCSD

  Authors

  • Matteo Mori

    University of California, San Diego

  • Rohan Balakrishnan

    University of California, San Diego, UCSD

  • Igor Segota

    UCSD

  • Zhongge Zhang

    University of California San Diego, UCSD

  • Christina Ludwig

    TUM

  • Ruedi Aebersold

    ETH Zurich

  • Terence T Hwa

    University of California, San Diego, UCSD

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• Analytical Descriptions of Fundamental Constraints in Protein Synthesis and Microbial Growth

  ORAL

  March 14, 2022, 5:24 PM – March 14, 2022, 5:36 PM

  Publication: Chure, Griffin and Jonas Cremer (2021). "Analytical Descriptions of Fundamental Constraints in Protein Synthesis and Microbial Growth." Manuscript in preparation.

  Presenters

  • Griffin Chure

    Stanford University

  Authors

  • Griffin Chure

    Stanford University

  • Jonas Cremer

    Standford University, Stanford University

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• Bacterial adaptation to changing conditions – an eco-physiological case study with the gut bacterium Escherichia coli

  ORAL

  March 14, 2022, 5:36 PM – March 14, 2022, 5:48 PM

  Presenters

  • Jonas Cremer

    Stanford University

  Authors

  • Jonas Cremer

    Stanford University

  • Terence T Hwa

    University of California, San Diego, UCSD

  • Rohan Balakrishnan

    University of California, San Diego, UCSD

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• Top-down identification of keystone species in the microbiome

  ORAL

  March 14, 2022, 5:48 PM – March 14, 2022, 6:00 PM

  Presenters

  • Guy Amit

    Physics Department, Bar-Ilan University

  Authors

  • Guy Amit

    Physics Department, Bar-Ilan University

  • Amir Bashan

    Physics Department, Bar-Ilan University

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• Cell cycle phase inheritance models to reveal biological oscillators that drive the cell cycle

  ORAL

  March 14, 2022, 6:00 PM – March 14, 2022, 6:12 PM

  Presenters

  • Fern A Hughes

    Imperial College London / MRC London Institute of Medical Sciences

  Authors

  • Fern A Hughes

    Imperial College London / MRC London Institute of Medical Sciences

  • Alexis R Barr

    MRC London Institute of Medical Sciences

  • Philipp Thomas

    Imperial College London

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• Shell Proteins' Roles in Bacterial Microcompartment Assembly

  ORAL

  March 14, 2022, 6:12 PM – March 14, 2022, 6:24 PM

  Publication: Mills, C.E.; Waltmann, C.; et al. Vertex Protein PduN Dictates Bacterial Metabolosome Morphology, Tuning Encapsulated Pathway Performance; In Preparation

  Presenters

  • Curt Waltmann

    Northwestern University

  Authors

  • Curt Waltmann

    Northwestern University

  • Carolyn E Mills

    Northwestern University

  • Nolan W Kennedy

    Northwestern University

  • Danielle Tullman-Ercek

    Northwestern University

  • Monica Olvera De La Cruz

    Northwestern University, Department of Physics and Astronomy, Department of Materials Science and Engineering, Department of Chemistry, Northwestern University

  View abstract →