iModulonMiner and PyModulon: Software for unsupervised mining of gene expression compendia

• Anand V. Sastry ,

  Roles Conceptualization, Methodology, Project administration, Software, Supervision, Writing – original draft, Writing – review & editing

  ¶‡ These authors share first authorship on this work.

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  https://orcid.org/0000-0002-8293-3909

  ⨯
• Yuan Yuan ,

  Roles Methodology, Software, Writing – original draft, Writing – review & editing

  ¶‡ These authors share first authorship on this work.

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  ⨯
• Saugat Poudel,

  Roles Conceptualization, Methodology, Software, Writing – review & editing

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  ⨯
• Kevin Rychel,

  Roles Software, Writing – original draft, Writing – review & editing

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  ⨯
• Reo Yoo,

  Roles Software, Writing – review & editing

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  ⨯
• Cameron R. Lamoureux,

  Roles Software, Writing – review & editing

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  ⨯
• Gaoyuan Li,

  Roles Software, Writing – review & editing

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  ⨯
• Joshua T. Burrows,

  Roles Software, Writing – review & editing

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  ⨯
• Siddharth Chauhan,

  Roles Software, Writing – review & editing

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  https://orcid.org/0000-0001-6674-895X

  ⨯
• Zachary B. Haiman,

  Roles Software, Writing – review & editing

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  ⨯
• Tahani Al Bulushi,

  Roles Software, Writing – review & editing

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  ⨯
• Yara Seif,

  Roles Conceptualization, Writing – review & editing

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  ⨯
• Bernhard O. Palsson,

  Roles Funding acquisition, Project administration, Supervision, Writing – review & editing

  Affiliations Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America, Bioinformatics and Systems Biology Program, University of California, San Diego, La Jolla, California, United States of America, Department of Pediatrics, University of California, San Diego, La Jolla, California, United States of America, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kemitorvet, Kongens, Lyngby, Denmark

  ⨯
• Daniel C. Zielinski

  Roles Project administration, Supervision, Writing – original draft, Writing – review & editing

  * E-mail: dczielin@ucsd.edu

  Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, California, United States of America

  https://orcid.org/0000-0001-6452-483X

  ⨯