Search Results - Anthony Gitter

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  1. 1
    Linking the signaling cascades and dynamic regulatory networks controlling stress responses

    Linking the signaling cascades and dynamic regulatory networks controlling stress responses by Anthony Gitter, Miri Carmi, Naama Barkai, Ziv Bar‐Joseph

    Published 2012
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  2. 2
    Network inference with Granger causality ensembles on single-cell transcriptomics

    Network inference with Granger causality ensembles on single-cell transcriptomics by Atul Deshpande, Li‐Fang Chu, Ron Stewart, Anthony Gitter

    Published 2022
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  3. 3
    Discovering pathways by orienting edges in protein interaction networks

    Discovering pathways by orienting edges in protein interaction networks by Anthony Gitter, Judith Klein‐Seetharaman, Anupam Gupta, Ziv Bar‐Joseph

    Published 2010
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  4. 4
    Neural networks to learn protein sequence–function relationships from deep mutational scanning data

    Neural networks to learn protein sequence–function relationships from deep mutational scanning data by Sam Gelman, Sarah A. Fahlberg, Pete Heinzelman, Philip A. Romero, Anthony Gitter

    Published 2021
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  5. 5
    DREM 2.0: Improved reconstruction of dynamic regulatory networks from time-series expression data

    DREM 2.0: Improved reconstruction of dynamic regulatory networks from time-series expression data by Marcel H. Schulz, William E Devanny, Anthony Gitter, Shan Zhong, Jason Ernst, Ziv Bar‐Joseph

    Published 2012
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  6. 6
    Backup in gene regulatory networks explains differences between binding and knockout results

    Backup in gene regulatory networks explains differences between binding and knockout results by Anthony Gitter, Zehava Siegfried, Michael Klutstein, Oriol Fornés, Baldo Oliva, Itamar Simon, Ziv Bar‐Joseph

    Published 2009
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  7. 7
    Network-Based Interpretation of Diverse High-Throughput Datasets through the Omics Integrator Software Package

    Network-Based Interpretation of Diverse High-Throughput Datasets through the Omics Integrator Software Package by Nurcan Tunçbağ, Sara J.C. Gosline, Amanda J. Kedaigle, Anthony R. Soltis, Anthony Gitter, Ernest Fraenkel

    Published 2016
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  8. 8
    Biophysics-based protein language models for protein engineering

    Biophysics-based protein language models for protein engineering by Sam Gelman, Bryce Johnson, Chase R. Freschlin, Anjana Sharma, Sameer D’Costa, John Peters, Anthony Gitter, Philip A. Romero

    Published 2024
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  9. 9
    A Text-guided Protein Design Framework

    A Text-guided Protein Design Framework by Shengchao Liu, Yutao Zhu, Jiarui Lu, Xu Zhao, Weili Nie, Anthony Gitter, Chaowei Xiao, Jian Tang, Hongyu Guo, Anima Anandkumar

    Published 2023
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  10. 10
    Integrated systems biology analysis of KSHV latent infection reveals viral induction and reliance on peroxisome mediated lipid metabolism

    Integrated systems biology analysis of KSHV latent infection reveals viral induction and reliance on peroxisome mediated lipid metabolism by Zoi E. Sychev, Alex Hu, Terri A. DiMaio, Anthony Gitter, Nathan D. Camp, William Stafford Noble, Alejandro Wolf‐Yadlin, Michael Lagunoff

    Published 2017
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  11. 11
    Ten quick tips for deep learning in biology

    Ten quick tips for deep learning in biology by Benjamin D. Lee, Anthony Gitter, Casey S. Greene, Sebastian Raschka, Finlay Maguire, Alexander J. Titus, Michael D. Kessler, Alexandra Lee, Marc G. Chevrette, Paul A. Stewart, Thiago Britto‐Borges, Evan M. Cofer, Kun‐Hsing Yu, Juan J. Carmona, Elana J. Fertig, Alexandr A. Kalinin, Bethany Signal, Benjamin J. Lengerich, Timothy J. Triche, Simina M. Boca

    Published 2022
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  12. 12
    Crowdsourced Protein Design: Lessons From the Adaptyv EGFR Binder Competition

    Crowdsourced Protein Design: Lessons From the Adaptyv EGFR Binder Competition by Tudor-Stefan Cotet, Igor Krawczuk, Martin Pačesa, Lennart Nickel, Bruno E. Correia, Nikhil Haas, Ahmad Zaman Qamar, Chance A. Challacombe, Patrick Kidger, Constance Ferragu, Akinobu Naka, Leonardo V. Castorina, Kartic Subr, Tadas Kluonis, Michael J. Stam, Suleyman Mert Ünal, Christopher W. Wood, Filippo Stocco, Noelia Ferruz, Yoichi Kurumida, Cianna N. Calia, Francesco Paesani, Leonardo D. Machado, Elian Belot, Anthony Gitter, M. Campbell, Logan Hallee

    Published 2025
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  13. 13
    Application of Traditional Vaccine Development Strategies to SARS-CoV-2

    Application of Traditional Vaccine Development Strategies to SARS-CoV-2 by Halie M. Rando, Ronan Lordan, Alexandra Lee, Amruta Naik, Nils Wellhausen, Elizabeth Sell, Likhitha Kolla, Anthony Gitter, Casey S. Greene, V. Bansal, John P. Barton, Simina M. Boca, Joel D. Boerckel, Christian Brueffer, James Brian Byrd, Stephen Capone, Shikta Das, Anna Ada Dattoli, John J. Dziak, Jeffrey Field, Soumita Ghosh, Anthony Gitter, Rishi R. Goel, Casey S. Greene, Marouen Ben Guebila, Daniel Himmelstein, Fengling Hu, Nafisa M. Jadavji, Jeremy P. Kamil, Sergey Knyazev, Likhitha Kolla, Alexandra Lee, Ronan Lordan, Tiago Lubiana, Temitayo Lukan, Adam L. MacLean, David Mai, Serghei Mangul, David Manheim, Lucy D’Agostino McGowan, Jesse G. Meyer, Ariel I. Mundo, Amruta Naik, YoSon Park, Dimitri Perrin, Yanjun Qi, Diane N. Rafizadeh, Bharath Ramsundar, Halie M. Rando, Sandipan Ray, Michael P. Robson, Vincent Rubinetti, Elizabeth Sell, Lamonica Shinholster, Ashwin N. Skelly, Yuchen Sun, Yusha Sun, Gregory L. Szeto, Ryan Velazquez, Jinhui Wang, Nils Wellhausen

    Published 2023
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  14. 14
    The Coming of Age of Nucleic Acid Vaccines during COVID-19

    The Coming of Age of Nucleic Acid Vaccines during COVID-19 by Halie M. Rando, Ronan Lordan, Likhitha Kolla, Elizabeth Sell, Alexandra Lee, Nils Wellhausen, Amruta Naik, Jeremy P. Kamil, Anthony Gitter, Casey S. Greene, John P. Barton, Simina M. Boca, Joel D. Boerckel, Christian Brueffer, James Brian Byrd, Stephen Capone, Shikta Capone, Anna Ada Dattoli, John J. Dziak, Jeffrey Field, Soumita Ghosh, Anthony Gitter, Rishi R. Goel, Casey S. Greene, Marouen Ben Guebila, Daniel Himmelstein, Fengling Hu, Nafisa M. Jadavji, Jeremy P. Kamil, Sergey Knyazev, Likhitha Kolla, Alexandra Lee, Ronan Lordan, Tiago Lubiana, Temitayo Lukan, Adam L. MacLean, David Mai, Serghei Mangul, David Manheim, Lucy D’Agostino McGowan, Jesse G. Meyer, Ariel I. Mundo, Amruta Naik, YoSon Park, Dimitri Perrin, Yanjun Qi, Diane N. Rafizadeh, Bharath Ramsundar, Halie M. Rando, Sandipan Ray, Michael P. Robson, Vincent Rubinetti, Elizabeth Sell, Lamonica Shinholster, Ashwin N. Skelly, Yuchen Sun, Yusha Sun, Gregory L. Szeto, Ryan Velazquez, Jinhui Wang, Nils Wellhausen

    Published 2023
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  15. 15
    Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through Analysis of Viral Genomics and Structure

    Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through Analysis of Viral Genomics and Structure by Halie M. Rando, Adam L. MacLean, Alexandra Lee, Ronan Lordan, Sandipan Ray, V. Bansal, Ashwin N. Skelly, Elizabeth Sell, John J. Dziak, Lamonica Shinholster, Lucy D’Agostino McGowan, Marouen Ben Guebila, Nils Wellhausen, Sergey Knyazev, Simina M. Boca, Stephen Capone, Yanjun Qi, YoSon Park, David Mai, Yuchen Sun, Joel D. Boerckel, Christian Brueffer, James Brian Byrd, Jeremy P. Kamil, Jinhui Wang, Ryan Velazquez, Gregory L. Szeto, John P. Barton, Rishi R. Goel, Serghei Mangul, Tiago Lubiana, Anthony Gitter, Casey S. Greene

    Published 2021
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  16. 16
    Correction for Rando et al., “Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through Analysis of Viral Genomics and Structure”

    Correction for Rando et al., “Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through Analysis of Viral Genomics and Structure” by Halie M. Rando, Adam L. MacLean, Alexandra Lee, Ronan Lordan, Sandipan Ray, V. Bansal, Ashwin N. Skelly, Elizabeth Sell, John J. Dziak, Lamonica Shinholster, Lucy D’Agostino McGowan, Marouen Ben Guebila, Nils Wellhausen, Sergey Knyazev, Simina M. Boca, Stephen Capone, Yanjun Qi, YoSon Park, David Mai, Yuchen Sun, Joel D. Boerckel, Christian Brueffer, James Brian Byrd, Jeremy P. Kamil, Jinhui Wang, Ryan Velazquez, Gregory L. Szeto, John P. Barton, Rishi R. Goel, Serghei Mangul, Tiago Lubiana, Anthony Gitter, Casey S. Greene

    Published 2022
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  17. 17
    Opportunities and obstacles for deep learning in biology and medicine

    Opportunities and obstacles for deep learning in biology and medicine by Travers Ching, Daniel Himmelstein, Brett K. Beaulieu‐Jones, Alexandr A. Kalinin, T. Brian, Gregory P. Way, Enrico Ferrero, Paul‐Michael Agapow, Michael Zietz, Michael M. Hoffman, Wei Xie, Gail Rosen, Benjamin J. Lengerich, Johnny Israeli, Jack Lanchantin, Stephen Woloszynek, Anne E. Carpenter, Avanti Shrikumar, Jinbo Xu, Evan M. Cofer, Christopher A. Lavender, Srinivas C. Turaga, Amr M. Alexandari, Zhiyong Lu, David J. Harris, David DeCaprio, Yanjun Qi, Anshul Kundaje, Yifan Peng, Laura K. Wiley, Marwin Segler, Simina M. Boca, S. Joshua Swamidass, Austin Huang, Anthony Gitter, Casey S. Greene

    Published 2018
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  18. 18
    Current and future directions in network biology

    Current and future directions in network biology by Marinka Žitnik, Michelle M. Li, A. V. Wells, Kimberly Glass, Deisy Morselli Gysi, Arjun Krishnan, T. M. Murali, Predrag Radivojac, Sushmita Roy, Anaı̈s Baudot, Serdar Bozdag, Danny Z. Chen, Lenore Cowen, Kapil Devkota, Anthony Gitter, Sara J.C. Gosline, Pengfei Gu, Pietro Hiram Guzzi, Heng Huang, Meng Jiang, Ziynet Nesibe Kesimoglu, Mehmet Koyutürk, Jian Ma, Alexander R. Pico, Nataša Pržulj, Teresa M. Przytycka, Benjamin J. Raphael, Anna Ritz, Roded Sharan, Yang Shen, Mona Singh, Donna K. Slonim, Hanghang Tong, Xinan Yang, Byung-Jun Yoon, Haiyuan Yu, Tijana Milenković

    Published 2023
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  19. 19
    Current and future directions in network biology

    Current and future directions in network biology by Marinka Žitnik, Michelle M. Li, A. V. Wells, Kimberly Glass, Deisy Morselli Gysi, Arjun Krishnan, T. M. Murali, Predrag Radivojac, Sushmita Roy, Anaı̈s Baudot, Serdar Bozdag, Danny Z. Chen, Lenore Cowen, Kapil Devkota, Anthony Gitter, Sara J.C. Gosline, Pengfei Gu, Pietro Hiram Guzzi, Heng Huang, Meng Jiang, Ziynet Nesibe Kesimoglu, Mehmet Koyutürk, Jian Ma, Alexander R. Pico, Nataša Pržulj, Teresa M. Przytycka, Benjamin J. Raphael, Anna Ritz, Roded Sharan, Yang Shen, Mona Singh, Donna K. Slonim, Hanghang Tong, Xinan Yang, Byung-Jun Yoon, Haiyuan Yu, Tijana Milenković

    Published 2024
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