Author

Kensuke Nakamura

Daiichi-Sankyo (Japan)ORCID 0000-0003-4848-1942Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Assay:protein sequence· 2 Research Focus:sequence-to-function modeling· 2 Research Focus:protein design· 1 Research Focus:protein structure prediction· 1 Approach:statistical model· 1

Frequent Co-Authors

Ameya Kulkarni· 2 shared Nathaniel BlalockiD· 2 shared Philip A. RomeroiD· 2 shared Agrim Babbar· 1 shared Jeonghyeon KimiD· 1 shared Sarah A. FahlbergiD· 1 shared Srinath Seshadri· 1 shared

Activity by Year

2026-2026 · peak 2/yr

Co-Author Collaboration Network

7 top collaborators · 18 mutual co-author links

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2 shared papersBioengineering

Ameya Kulkarni

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2 papers

Recent·Most cited

BioengineeringNature CommunicationsPeer-reviewedSep 12, 2026

Functional alignment of protein language models via reinforcement learning

Nathaniel Blalock, Srinath Seshadri, Kensuke Nakamura…·Philip A. Romero

This paper introduces RLXF, a framework that aligns protein language models with experimental functional goals, improving the generation of high-functioning protein variants.

11 citationstop 1%

protein sequencedeep learning

𝕏 PostBluesky

ImmunologybioRxivPreprintMay 11, 2026

Explicit representation of germline and non-germline residues improves antibody language modeling

Jeonghyeon Kim, Nathaniel Blalock, Ameya Kulkarni…·Philip A. Romero

PRISM improves antibody language modeling by distinguishing germline and non-germline residues, achieving better binding affinity correlation and controllable generation.

1 citation

protein sequencedeep learning

𝕏 PostBluesky