Author

Kale Kundert

Harvard UniversityORCID 0000-0003-0051-5867Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:CRISPR screen· 1 Approach:diffusion model· 1 Organism:E. coli· 1 Approach:experimental assay· 1 Organism:human· 1 Research Focus:perturbation response prediction· 1 Research Focus:protein design· 1 Assay:protein structure· 1

Frequent Co-Authors

Andrew H. NgiD· 1 shared Benjamin L. Oakes· 1 shared Benjamin Murray HeineikeiD· 1 shared Christina M. FitzsimmonsiD· 1 shared Christof FellmanniD· 1 shared David F. SavageiD· 1 shared George McDonald ChurchiD· 1 shared Hana El‐SamadiD· 1 shared

Activity by Year

2019-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 36 mutual co-author links

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1 shared paperSynthetic Biology

Andrew H. NgORCID

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2 papers

Recent·Most cited

BioinformaticsbioRxivPreprintFeb 4, 2026

Designing protein/non-protein binding interactions using a full-atom diffusion model

Kale Kundert, George McDonald Church

The paper introduces AtomPaint, a full-atom diffusion model for designing protein/non-protein binding interactions, showing it outperforms random guessing in sequence recovery.

DOI 10.64898/2026.02.02.693502

protein structurediffusion model

𝕏 PostBluesky

Synthetic BiologyNature CommunicationsPeer-reviewedMay 9, 2019

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Controlling CRISPR-Cas9 with ligand-activated and ligand-deactivated sgRNAs

Kale Kundert, James E. Lucas, Kyle E. Watters…·Tanja Kortemme

Inserting theophylline aptamers into the sgRNA yields ligand-activated and ligand-deactivated guides that tune CRISPRi in E. coli over 11x to 13x dynamic ranges, enabling two-ligand multiplexing.

189 citationstop 1%

E. coliyeast

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