Author

Masatoshi Uehara

GenentechORCID 0000-0001-9017-3105Unclaimed 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 Approach:benchmark study· 1 Research Focus:benchmarking· 1 Research Focus:cell-cell communication· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1 Research Focus:imputation· 1 Approach:large language model· 1

Frequent Co-Authors

Abbas NaziriD· 1 shared Alexander DerryiD· 1 shared Alexander W. RivesiD· 1 shared Allan dos Santos CostaiD· 1 shared Alvin HsuiD· 1 shared Amelia Liu· 1 shared Ana Carolina LeoteiD· 1 shared Andrew Ho· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 14 mutual co-author links

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1 shared paperBioinformatics

Abbas NazirORCID

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Author profile →

3 papers

Recent·Most cited

LifeSciBench: Evaluating Language Models on Realistic, Expert-Level Tasks in the Life Sciences

Amelia Liu, Andrew Ho, Anne Marie Droste, David Martin, Edmund Wong, Edward Zhou, Isabelle Zhou, Joshua Park, Joy Jiao, Katie-Rose Skelly, Kenny Kim, Jeremy Li, Kevin Rao, Masatoshi Uehara, Max Marion, , Yunyun Wang

LifeSciBench evaluates language models on 750 expert-authored tasks across seven life science domains and workflows, revealing significant gaps in model performance.

bioRxiv · Aug 22, 2026 · PreprintBioinformatics

Language Modeling Materializes a World Model of Protein Biology

Salvatore Candido, Thomas Hayes, Alexander Derry, Roshan Rao, Zeming Lin, Robert Verkuil, Bryan Z. Wu, Jin Sub Lee, Elise S. Bruguera, Jehan A. Keval, Mykhailo Kopylov, John E. Pak, Wesley C. H. Wu, Neil Thomas, Samson J. Mataraso, , Alexander W. Rives

The paper uses language modeling to create a comprehensive representation of protein biology, enabling structure prediction and discovery of high-affinity protein interactions.

bioRxiv · Jun 4, 2026 · PreprintBioinformatics

SpatialAgent: An Autonomous AI Agent for Spatial Biology

Hanchen Wang, Yichun He, Paula Pinto Coelho, Matthew Bucci, Abbas Nazir, Bob Chen, Linh T. Trinh, Serena Zhang, Ziyu Lu, Kexin Huang, Vineethkrishna Chandrasekar, Douglas C. Chung, Minsheng Hao, Ana Carolina Leote, Yong‐Ju Lee, , Aviv Regev

SpatialAgent integrates large language models with dynamic tool retrieval, multimodal interpretation, and claim verification to automate end-to-end spatial biology workflows from gene-panel design to tissue annotation and hypothesis generation.

bioRxiv · Apr 3, 2025 · PreprintBioinformatics