Author

Cheng Frank Gao

University of ChicagoORCID 0000-0002-3296-773XUnclaimed ORCID profile · follow to get notified of new preprints

Additional preprints under this name without ORCID

Cheng Gao2 papers · Nanjing Agricultural University

Biology Disciplines

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Bioinformatics· 1 Synthetic Biology· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 2 Research Focus:benchmarking· 1 Approach:contrastive learning· 1 Research Focus:differential expression· 1 Research Focus:gene regulatory network inference· 1 Approach:machine learning (classical)· 1 Assay:protein sequence· 1 Assay:scRNA-seq· 1

Frequent Co-Authors

Suriyanarayanan VaikuntanathaniD· 2 shared Aaron R. DinneriD· 1 shared Aditya NandyiD· 1 shared Bryan C. DickinsoniD· 1 shared Christopher BasileiD· 1 shared Joshua A. PixleyiD· 1 shared Matthew J. StylesiD· 1 shared Samantha J. RiesenfeldiD· 1 shared

Activity by Year

2024-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 37 mutual co-author links

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2 shared papersSynthetic Biology

Suriyanarayanan VaikuntanathanORCID

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2 papers

Recent·Most cited

Mapping the diverse topologies of protein-protein interaction fitness landscapes

Shannon S. Lu, Matthew J. Styles, Cheng Frank Gao, Aditya Nandy, Christopher Basile, Joshua A. Pixley, Siyuan Tao, Aaron R. Dinner, Suriyanarayanan Vaikuntanathan, Bryan C. Dickinson

The paper identifies target-specific fitness landscapes in protein-protein interactions and develops a supervised contrastive learning approach to predict binders.

bioRxiv · Oct 14, 2025 · PreprintSynthetic Biology

Dissection and Integration of Bursty TranscriptionalDynamics for Complex Systems

Cheng Gao, Suriyanarayanan Vaikuntanathan, Samantha J. Riesenfeld

The paper introduces TopicVelo, a method to improve RNA velocity estimation by integrating bursty transcriptional dynamics, enabling accurate process-specific velocity inference and transition analysis.

Proceedings of the National Academy of Sciences · Apr 26, 2024Peer-reviewedBioinformatics