Designing diverse and high-performance proteins with a large language model in the loop

Carlos A. Gomez-Uribe; Japheth Gado; Meiirbek Islamov

doi:10.1371/journal.pcbi.1013119

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Open Access

Peer-reviewed

Research Article

Designing diverse and high-performance proteins with a large language model in the loop

Carlos A. Gomez-Uribe ,

Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Project administration, Resources, Software, Supervision, Validation, Writing – original draft, Writing – review & editing

* E-mail: cgomez@alum.mit.edu

Affiliation Solugen, Inc., Houston, Texas, United States of America

https://orcid.org/0000-0003-0126-7180

⨯
Japheth Gado,

Roles Conceptualization, Data curation, Formal analysis, Methodology, Software, Writing – original draft, Writing – review & editing

Affiliation Solugen, Inc., Houston, Texas, United States of America
⨯
Meiirbek Islamov

Roles Data curation, Formal analysis, Software, Visualization, Writing – review & editing

Affiliation Solugen, Inc., Houston, Texas, United States of America
⨯

Designing diverse and high-performance proteins with a large language model in the loop

Carlos A. Gomez-Uribe,
Japheth Gado,
Meiirbek Islamov

Published: June 5, 2025
https://doi.org/10.1371/journal.pcbi.1013119

About the Authors

Carlos A. Gomez-Uribe

Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Project administration, Resources, Software, Supervision, Validation, Writing – original draft, Writing – review & editing

* E-mail: cgomez@alum.mit.edu

Affiliation Solugen, Inc., Houston, Texas, United States of America

https://orcid.org/0000-0003-0126-7180

Japheth Gado

Roles Conceptualization, Data curation, Formal analysis, Methodology, Software, Writing – original draft, Writing – review & editing

Affiliation Solugen, Inc., Houston, Texas, United States of America

Meiirbek Islamov

Roles Data curation, Formal analysis, Software, Visualization, Writing – review & editing

Affiliation Solugen, Inc., Houston, Texas, United States of America

Competing Interests

The authors have declared that no competing interests exist.

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Optimization
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Language
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Probability distribution
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Machine learning
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Machine learning algorithms
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Macromolecular design
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Forecasting
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Protein sequencing
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