Author

Eleanor Zhu

University of California, San Francisco

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioengineering· 1 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Research Focus:benchmarking· 1 Research Focus:protein design· 1 Assay:protein sequence· 1 Assay:protein structure· 1 Research Focus:protein structure prediction· 1 Research Focus:sequence-to-function modeling· 1 Research Focus:software / tool· 1

Frequent Co-Authors

Deniz AkpinarogluiD· 2 shared Tanja KortemmeiD· 2 shared Amy Guo· 1 shared Benjamin OrriD· 1 shared Kosuke SekiiD· 1 shared Mark J. S. KellyiD· 1 shared Michael J. KeiseriD· 1 shared Stephanie E. CrillyiD· 1 shared

Activity by Year

2023-2025 · peak 1/yr

Co-Author Collaboration Network

8 top collaborators · 19 mutual co-author links

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2 shared papersBioinformatics

Deniz AkpinarogluORCID

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2 papers

Recent·Most cited

BioinformaticsbioRxivPreprintJun 2, 2025

An improved model for prediction of de novo designed proteins with diverse geometries

Benjamin Orr, Stephanie E. Crilly, Deniz Akpinaroglu…·Tanja Kortemme

The paper presents a fine-tuned Alphafold2 model that better captures geometric diversity in de novo designed proteins compared to standard methods.

1 citation

protein structuredeep learning

𝕏 PostBluesky

BioengineeringbioRxivPreprintDec 15, 2023

Structure-conditioned masked language models for protein sequence design generalize beyond the native sequence space

Deniz Akpinaroglu, Kosuke Seki, Amy Guo…·Tanja Kortemme

This paper introduces Frame2seq, a structure-conditioned masked language model for protein sequence design that generates novel, stable proteins with low sequence identity to native sequences.

36 citations

protein sequencedeep learning

𝕏 PostBluesky