Author

James Kuo

Harvard University

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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Synthetic Biology· 2 Microbiology· 1 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 4 Organism:bacteria (other)· 2 Assay:CRISPR screen· 2 Research Focus:variant calling· 2 Research Focus:differential expression· 1 Research Focus:drug response / drug discovery· 1 Research Focus:gene regulatory network inference· 1 Research Focus:host-pathogen & immune response· 1

Frequent Co-Authors

Pamela A. SilveriD· 2 shared Aaron T. BalanaiD· 1 shared Adam C KaplaniD· 1 shared Adam J. RiesselmaniD· 1 shared Alexander E. Ferrazzoli· 1 shared Angelo SolaniaiD· 1 shared Anny‐Claude LuissintiD· 1 shared Brenda R. Lemos· 1 shared

Activity by Year

2017-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 10 mutual co-author links

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2 shared papersSynthetic Biology

Pamela A. SilverORCID

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4 papers

Recent·Most cited

The Secreted Metabolite Isopentenyladenine from Faecalibacterium prausnitzii Mitigates Gut Inflammation

Lina Yao, Angelo Solania, Anny‐Claude Luissint, Aaron T. Balana, Hua Zhang, Dewakar Sangaraju, Zijuan Lai, James Kuo, Kelly M. Storek, Dennis W. Wolan

This study identifies isopentenyladenine as a secreted metabolite from Faecalibacterium prausnitzii that modulates host immune responses and mitigates gut inflammation in murine models.

bioRxiv · Aug 24, 2025 · PreprintMicrobiology

Towards a translationally-independent RNA-based synthetic oscillator using deactivated CRISPR-Cas

James Kuo, Ruoshi Yuan, Carlos Martínez Sánchez, Johan Paulsson, Pamela A. Silver

The paper constructs RNA-based synthetic oscillators using deactivated CRISPR-Cas systems in bacterial cells, finding that dCas12a oscillators perform better than dCas9 oscillators.

Nucleic Acids Research · Jun 23, 2020Peer-reviewedSynthetic Biology

CRISPR/Cas9 cleavages in budding yeast reveal templated insertions and strand-specific insertion/deletion profiles

Brenda R. Lemos, Adam C Kaplan, Ji Eun Bae, Alexander E. Ferrazzoli, James Kuo, R. Anand, David P. Waterman, James E. Haber

The paper investigates CRISPR-Cas9 cleavage in yeast and human cells, revealing templated insertions and strand-specific indel patterns influenced by gRNA orientation and repair factors.

Proceedings of the National Academy of Sciences · Feb 13, 2018Peer-reviewedMolecular Biology

Rapid genome recoding by iterative recombineering of synthetic DNA

Yu Heng Lau, Finn Stirling, James Kuo, Michiel A. P. Karrenbelt, Yujia A. Chan, Adam J. Riesselman, Connor A. Horton, Elena Schäfer, David Lips, Matthew T. Weinstock, Daniel G. Gibson, Jeffrey C. Way, Pamela A. Silver

This paper introduces a method for rapid genome recoding in Salmonella typhimurium by iteratively recombineering synthetic DNA, achieving the highest number of codon substitutions in a single organism.

Nucleic Acids Research · May 2, 2017Peer-reviewedSynthetic Biology