Author

Patrick C. Kinnunen

Lawrence Berkeley National LaboratoryORCID 0000-0002-1741-2867Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioengineering· 1 Synthetic Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:drug response / drug discovery· 2 Assay:CRISPR screen· 1 Approach:deep learning· 1 Organism:E. coli· 1 Approach:experimental assay· 1 Assay:metabolomics· 1 Research Focus:perturbation response prediction· 1 Approach:statistical model· 1

Frequent Co-Authors

Héctor García MartíniD· 2 shared Andrew B. ConleyiD· 1 shared Apostolos ZournasiD· 1 shared Aria WallsiD· 1 shared Azadeh Alikhani· 1 shared Cholpisit KiattiseweeiD· 1 shared Christopher J. PetzoldiD· 1 shared David Melis· 1 shared

Activity by Year

2024-2025 · peak 1/yr

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10 top collaborators · 27 mutual co-author links

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2 shared papersBioengineering

Héctor García MartínORCID

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2 papers

Recent·Most cited

Prediction of metabolic dynamics through deep learning and high-throughput multiomics data

Jose Manuel Martí, Patrick C. Kinnunen, Mark Held, Azadeh Alikhani, Andrew B. Conley, Yan Chen, Tijana Radivojević, Jennifer W. Gin, Apostolos Zournas, Rebecca M. Lennen, Hooman Hefzi, Mustafa Baniodeh, Peter Harrington, Mark Forrer, David Melis, , Héctor García Martín

This paper trains a deep learning model on multiomics data to predict metabolic dynamics in synthetic biology, achieving high accuracy in predicting product and metabolite levels.

bioRxiv · May 27, 2025 · PreprintBioengineering

Guide RNA structure design enables combinatorial CRISPRa programs for biosynthetic profiling

Jason T. Fontana, David Sparkman-Yager, Ian Faulkner, Ryan A. L. Cardiff, Cholpisit Kiattisewee, Aria Walls, Tommy G. Primo, Patrick C. Kinnunen, Héctor García Martín, Jesse G. Zalatan, James M. Carothers

The paper designs guide RNA structures for CRISPRa to optimize multi-gene expression in bacterial metabolic pathways, achieving higher product titers and identifying pathway bottlenecks.

Nature Communications · Jul 27, 2024Peer-reviewedSynthetic Biology