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Open Access
Peer-reviewed
Research Article
BOFdat: Generating biomass objective functions for genome-scale metabolic models from experimental data
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Jean-Christophe Lachance,
Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Software, Visualization, Writing – original draft, Writing – review & editing
Affiliation Département de Biologie, Université de Sherbrooke, Sherbrooke, Québec, Canada
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Colton J. Lloyd,
Roles Conceptualization, Data curation, Methodology, Software, Writing – review & editing
Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, CA, United States of America
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Jonathan M. Monk,
Roles Conceptualization, Methodology, Software, Writing – review & editing
Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, CA, United States of America
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Laurence Yang,
Roles Conceptualization, Methodology, Software, Validation
Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, CA, United States of America
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Anand V. Sastry,
Roles Conceptualization, Methodology, Writing – review & editing
Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, CA, United States of America
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Yara Seif,
Roles Validation, Writing – review & editing
Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, CA, United States of America
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Bernhard O. Palsson,
Roles Funding acquisition, Resources, Supervision
Affiliations Department of Bioengineering, University of California, San Diego, La Jolla, CA, United States of America, Bioinformatics and Systems Biology Program, University of California, San Diego, La Jolla, CA, United States of America, Department of Pediatrics, University of California, San Diego, La Jolla, CA, United States of America, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kemitorvet, Lyngby, Denmark
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Sébastien Rodrigue,
Roles Conceptualization, Funding acquisition, Resources, Supervision, Visualization, Writing – review & editing
Affiliation Département de Biologie, Université de Sherbrooke, Sherbrooke, Québec, Canada
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Adam M. Feist,
Roles Conceptualization, Supervision, Writing – review & editing
Affiliations Department of Bioengineering, University of California, San Diego, La Jolla, CA, United States of America, Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kemitorvet, Lyngby, Denmark
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Zachary A. King ,
Roles Conceptualization, Methodology, Supervision, Visualization, Writing – review & editing
* E-mail: zaking@ucsd.edu (ZAK); pierre-etienne.jacques@usherbrooke.ca (PÉJ)
Affiliation Department of Bioengineering, University of California, San Diego, La Jolla, CA, United States of America
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Pierre-Étienne Jacques
Roles Conceptualization, Funding acquisition, Methodology, Resources, Supervision, Visualization, Writing – review & editing
* E-mail: zaking@ucsd.edu (ZAK); pierre-etienne.jacques@usherbrooke.ca (PÉJ)
Affiliation Département de Biologie, Université de Sherbrooke, Sherbrooke, Québec, Canada
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BOFdat: Generating biomass objective functions for genome-scale metabolic models from experimental data
- Jean-Christophe Lachance,
- Colton J. Lloyd,
- Jonathan M. Monk,
- Laurence Yang,
- Anand V. Sastry,
- Yara Seif,
- Bernhard O. Palsson,
- Sébastien Rodrigue,
- Adam M. Feist,
- Zachary A. King
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- Published: April 22, 2019
- https://doi.org/10.1371/journal.pcbi.1006971