Author

Oliver Takacsi-Nagy

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· 4 Genomics· 1 Immunology· 1 Systems Biology· 1

Signature Assays, Organisms & Methods

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Organism:human· 6 Approach:experimental assay· 5 Research Focus:differential expression· 3 Research Focus:cell type annotation· 2 Assay:CRISPR screen· 2 Assay:proteomics· 2 Approach:statistical model· 2 Research Focus:cell-cell communication· 1

Frequent Co-Authors

Theodore L. RothiD· 6 shared Ansuman T. SatpathyiD· 5 shared Austin HartmaniD· 4 shared Alison K. McClellan· 3 shared Courtney KernickiD· 3 shared Johnathan Lu· 3 shared Katherine E. Santostefano· 3 shared Nicole E. Theberath· 3 shared

Activity by Year

2019-2026 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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6 shared papersGenetics

Theodore L. RothORCID

Mutual co-authors in cluster

Author profile →

7 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

Molecular pixelation of the CAR T cell surface proteome

Anthony J. Cesnik, Oliver Takacsi-Nagy, Trang H. Le, Theodore L. Roth, Ansuman T. Satpathy, Emma K. Lundberg

The paper uses Molecular Pixelation to analyze surface proteomic signatures of CAR T cells under acute and chronic stimulation, identifying spatial patterns linked to exhaustion.

bioRxiv · Feb 2, 2026 · PreprintSystems Biology

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

Scalable transcription factor mapping uncovers the regulatory dynamics of natural and synthetic transcription factors in human T cell states

Riley D. Z. Mullins, Jesse Meir Zaretsky, Emily Stoller, Michael Moore, Oliver Takacsi-Nagy, Oleg Shpynov, Remi Sampaleanu, Theodore L. Roth, Ansuman T. Satpathy, Robi David Mitra, Sidharth V. Puram

The paper develops and applies a scalable method to map transcription factor binding in human T cells, revealing novel regulatory dynamics and gene targets.

bioRxiv · Oct 9, 2025 · PreprintImmunology

Evolutionarily guided transcription factor design programs novel T cell states

Oliver Takacsi-Nagy, Austin Hartman, Andy Y. Chen, Yajie Yin, Gabriella C. Reeder, Courtney Kernick, Johnathan Lu, Alison K. McClellan, Colin J. Raposo, Nicole E. Theberath, Patrick Yan, Justin Eyquem, Theodore L. Roth, Ansuman T. Satpathy

This paper designs novel transcription factors using evolutionary principles to generate T cell states with enhanced functionality.

bioRxiv · Nov 6, 2024 · PreprintGenetics

Saccharomyces cerevisiae H2A copies differentially contribute to recombination and CAG/CTG repeat maintenance, with a role for H2A.1 threonine 126

Nealia C. M. House, Erica J. Polleys, Ishtiaque Quasem, Cailin E. Joyce, Oliver Takacsi-Nagy, Ryan B. Hayman, Jocelyn E. Krebs, Stephen M. Fuchs, Catherine H. Freudenreich

The paper investigates the role of H2A subtypes in CAG/CTG repeat instability in yeast, finding H2A.1 protects against expansion and its phosphorylation at Thr126 is critical for repair fidelity.

eLife · Dec 5, 2019Peer-reviewedGenetics