Author

Katherine E. Santostefano

Stanford Medicine

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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Genetics· 2 Genomics· 1

Signature Assays, Organisms & Methods

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Organism:human· 3 Assay:CRISPR screen· 2 Approach:experimental assay· 2 Research Focus:differential expression· 1 Research Focus:perturbation response prediction· 1 Approach:statistical model· 1 Research Focus:variant calling· 1 Assay:whole-genome sequencing· 1

Frequent Co-Authors

Austin HartmaniD· 3 shared Oliver Takacsi-Nagy· 3 shared Theodore L. RothiD· 3 shared Alison K. McClellan· 2 shared Ansuman T. SatpathyiD· 2 shared Courtney KernickiD· 2 shared Johnathan Lu· 2 shared Lujing Wu· 2 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 40 mutual co-author links

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3 shared papersGenetics

Austin HartmanORCID

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3 papers

Recent·Most cited

Ultra-large targeted DNA integrations in primary human cells

Courtney Kernick, Lauren Chow, Mikail Alejandro, Ke Li, Maxwell Gabriel Foisey, Xiaoyu Yang, Claire E. Hilburger, Johnathan Lu, Lujing Wu, Alison K. McClellan, Oliver Takacsi-Nagy, Rocco Brajenovic, Nicole E. Theberath, Emily Celallos Fuentes, Erin Lin, , Theodore L. Roth

This paper identifies methods to achieve ultra-large DNA integrations (>10 kb) in human cells with high efficiency using optimized templates and delivery strategies.

bioRxiv · Apr 9, 2026 · PreprintGenetics

Systematic identification of seed-driven off-target effects in Perturb-seq experiments

Austin Hartman, John D. Blair, Thao P. Nguyen, Kyle A. Dyson, Alexandra Bradu, Oliver Takacsi-Nagy, Katherine E. Santostefano, Theresa Boade, Matthew Bolaños, Ronghui Zhu, Emma Dann, Alexander Marson, Aaron D. Gitler, Rahul Satija, Ansuman T. Satpathy, Theodore L. Roth

The paper identifies off-target effects in CRISPRi Perturb-seq experiments by analyzing transcriptional similarity between on-target and off-target guide effects.

bioRxiv · Mar 30, 2026 · PreprintGenomics

A unified genetic perturbation language for human cellular programming

Austin Hartman, Oliver Takacsi-Nagy, Courtney Kernick, Nicole E. Theberath, Johnathan Lu, Lujing Wu, Michelle Mantilla, Siddhesh Mittra, Alison K. McClellan, Nicole Johnson, Lina Mohamad, Lesly Castillo-Colin, Farzad Hoque, Alexander Eapen, Andy Y. Chen, , Theodore L. Roth

CRISPR-All enables genome-scale, combinatorial genetic perturbations in human cells, revealing additive functional improvements through multiplexed modifications.

bioRxiv · Nov 20, 2025 · PreprintGenetics