A spatially resolved stochastic model reveals the role of supercoiling in transcription regulation

• Yuncong Geng ,

  Roles Conceptualization, Formal analysis, Investigation, Methodology, Software, Visualization, Writing – original draft, Writing – review & editing

  * E-mail: yuncong5@illinois.edu

  Current address: Center for Biophysics and Quantitative Biology, University of Illinois at Urbana-Champaign, Urbana, Illinois, United States of America

  Affiliation Department of Biomedical Engineering, Johns Hopkins School of Medicine, Baltimore, Maryland, United States of America

  https://orcid.org/0000-0002-9998-7890

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• Christopher Herrick Bohrer,

  Roles Conceptualization, Writing – review & editing

  Current address: Laboratory of Receptor Biology and Gene Expression, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, Maryland, United States of America

  Affiliations Department of Biophysics, Johns Hopkins University, Baltimore, Maryland, United States of America, Department of Biophysics and Biophysical Chemistry, Johns Hopkins School of Medicine, Baltimore, Maryland, United States of America

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• Nicolás Yehya,

  Roles Writing – review & editing

  Affiliation Department of Biophysics and Biophysical Chemistry, Johns Hopkins School of Medicine, Baltimore, Maryland, United States of America

  https://orcid.org/0000-0002-8705-900X

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• Hunter Hendrix,

  Roles Writing – review & editing

  Affiliation Department of Biophysics and Biophysical Chemistry, Johns Hopkins School of Medicine, Baltimore, Maryland, United States of America

  https://orcid.org/0000-0003-2972-3803

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• Lior Shachaf,

  Roles Writing – review & editing

  Affiliation Department of Biophysics, Johns Hopkins University, Baltimore, Maryland, United States of America

  https://orcid.org/0000-0001-6827-8605

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• Jian Liu,

  Roles Writing – review & editing

  Affiliation Center for Cell Dynamics, Department of Cell Biology, Johns Hopkins University School of Medicine, Baltimore, Maryland, United States of America

  https://orcid.org/0000-0003-2935-0349

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• Jie Xiao,

  Roles Funding acquisition, Supervision, Writing – review & editing

  Affiliation Department of Biophysics and Biophysical Chemistry, Johns Hopkins School of Medicine, Baltimore, Maryland, United States of America

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• Elijah Roberts

  Roles Conceptualization, Funding acquisition, Resources, Software, Supervision

  Current address: 10x Genomics Inc., Pleasanton, California, United States of America

  Affiliation Department of Biophysics, Johns Hopkins University, Baltimore, Maryland, United States of America

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