Systems Biology

NETISCE: A Network-Based Tool for Cell Fate Reprogramming
Lauren Marazzi, Milan Shah, Shreedula Balakrishnan, Ananya Patil, Paola Vera-Licona

bioRxiv 2021.12.30.474582; doi: https://doi.org/10.1101/2021.12.30.474582 New Results

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Spatio-temporal modeling reveals a layer of tunable control circuits for the distribution of cytokines in tissues
Patrick Brunner, Lukas Kiwitz, Kevin Thurley

bioRxiv 2022.03.17.484722; doi: https://doi.org/10.1101/2022.03.17.484722 New Results

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Quantifying the impact of ecological memory on the dynamics of interacting communities
Moein Khalighi, Guilhem Sommeria-Klein, Didier Gonze, Karoline Faust, Leo Lahti

bioRxiv 2021.09.01.458486; doi: https://doi.org/10.1101/2021.09.01.458486 New Results

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Computational design and construction of an Escherichia coli strain engineered to produce a non-standard amino acid
Ali R. Zomorrodi, Colin Hemez, Pol Arranz-Gibert, Terrence Wu, Farren J. Isaacs, Daniel Segrè

bioRxiv 2022.04.02.486821; doi: https://doi.org/10.1101/2022.04.02.486821 New Results

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KSTAR: An algorithm to predict patient-specific kinase activities from phosphoproteomic data
Sam Crowl, Benjamin Jordan, Hamza Ahmed, Cynthia Ma, Kristen M. Naegle

bioRxiv 2021.07.06.451378; doi: https://doi.org/10.1101/2021.07.06.451378 New Results

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Relative stability of mRNA and protein severely limits inference of gene networks from single-cell mRNA measurements
Tarun Mahajan, Michael Saint-Antoine, Roy D. Dar, Abhyudai Singh

bioRxiv 2022.03.31.486623; doi: https://doi.org/10.1101/2022.03.31.486623 New Results

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Padé SSA: A frequency domain method for estimating the dynamics of stochastic reaction networks
Ankit Gupta, Mustafa Khammash

bioRxiv 2022.03.31.486511; doi: https://doi.org/10.1101/2022.03.31.486511 New Results

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A fluctuation-based approach to infer kinetics and topology of cell-state switching
Michael Saint-Antoine, Ramon Grima, Abhyudai Singh

bioRxiv 2022.03.30.486492; doi: https://doi.org/10.1101/2022.03.30.486492 New Results

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Prediction of gene essentiality using machine learning and genome-scale metabolic models
Lilli J. Freischem, Mauricio Barahona, Diego A. Oyarzún

bioRxiv 2022.03.31.486520; doi: https://doi.org/10.1101/2022.03.31.486520 New Results

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Exploring functional protein covariation across single cells using nPOP
Andrew Leduc, R. Gray Huffman, Joshua Cantlon, Saad Khan, Nikolai Slavov

bioRxiv 2021.04.24.441211; doi: https://doi.org/10.1101/2021.04.24.441211 New Results

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Systems Biology

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