Author

Ryan V. Tran

University of California, BerkeleyORCID 0009-0002-4648-7785Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Molecular Biology· 2 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Assay:CRISPR screen· 2 Organism:human· 2 Approach:statistical model· 2 Assay:bulk RNA-seq· 1 Research Focus:differential expression· 1 Research Focus:drug response / drug discovery· 1 Approach:experimental assay· 1 Organism:mouse· 1

Frequent Co-Authors

Amanda MokiD· 1 shared Angela Davidian· 1 shared Anna MrakiD· 1 shared Ashley T WongiD· 1 shared Ayda Afravi· 1 shared Bao Chau DuongiD· 1 shared Beatriz AlvaradoiD· 1 shared Benjamin L. Oakes· 1 shared

Activity by Year

2021-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 17 mutual co-author links

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1 shared paperMolecular Biology

Amanda MokORCID

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Author profile →

3 papers

Recent·Most cited

Sequential Proofreading Enhances Specificity and Potency of CRISPR-CasX-based Epigenetic Repressors

Emeric J. Charles, Ross White, Ryan V. Tran, Amanda Mok, Lea Alice Kiefer, Kirsten A. Reimer, Ashley T Wong, Sterling Ripley-Phipps, Natalie Goh, T.C. Stevenson Keller, Carlos Santamaría, Christopher Duncan-Lewis, Beatriz Alvarado, Heather M. Kozy, Zoi Kyrkou, , Jason D. Fernandes

This paper introduces ELXRs, CRISPR-CasX-based epigenetic repressors that use sequential proofreading to enhance specificity and potency by reading chromatin state before DNA methylation.

bioRxiv · Aug 31, 2026 · PreprintMolecular Biology

Mutational scanning of TnpB reveals latent activity for genome editing

Brittney W. Thornton, Rachel F. Weissman, Jorge E. Rodriguez, Ryan V. Tran, Bao Chau Duong, Cynthia I. Terrace, Ugrappa Nagalakshmi, George Austin, Evan D. Groover, Flora Zhiqi Wang, Jung-Un Park, Viktoriya Georgieva, Julia Tartaglia, Myeong-Je Cho, Savithramma P. Dinesh-Kumar, , David F. Savage

This study identifies activating mutations in TnpB enzymes that enhance genome editing activity across multiple species.

bioRxiv · Feb 11, 2025 · PreprintMolecular Biology

Identifying The "Core" Transcriptome of SARS-CoV-2 Infected Cells

Elanood Tageldin Nour, Ryan V. Tran, Ayda Afravi, Xinyue Pei, Angela Davidian, Pavan Kadandale

The paper identifies a core transcriptome of SARS-CoV-2 infected cells and finds cell-type-specific gene regulation patterns, including unique upregulation of metabolism-related genes in kidney cells.

bioRxiv · Sep 22, 2021 · PreprintBioinformatics