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Hunter Nisonoff

University of California

11H-index
31Paper Count
582Citation Count
Published Papers 13
Publication Date
Property guidance for protein sequence generative models with ProteinGuide
err2026-07-29
err0
PREAI
errJunhao Xiong; Ishan Gaur; Maria Lukarska; Hunter Nisonoff; Luke M. Oltrogge; David F. Savage; Jennifer Listgarten
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Structure and evolution-guided design of minimal RNA-guided nucleases
errScience
IF45.8
err2026-07-16
err0
PREAI
errPetr Skopintsev; Isabel Esain-Garcia; Evan C. DeTurk; Peter H. Yoon; Zehan Zhou; Trevor Weiss; Maris Kamalu; Ajit Chamraj; Kenneth J. Loi; Conner J. Langeberg; Ron S. Boger; Hunter Nisonoff; Hannah M. Karp; Lin-Xing Chen; Honglue Shi; Kamakshi Vohra; Jillian F. Banfield; Jamie H. D. Cate; Steven E. Jacobsen; Jennifer A. Doudna
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RNA language models predict mutations that improve RNA function
err2024-12-05
err0
errOAAI
errShulgina, Yekaterina; Trinidad, Marena I.; Langeberg, Conner J.; Nisonoff, Hunter; Chithrananda, Seyone; Skopintsev, Petr; Nissley, Amos J.; Patel, Jaymin; Boger, Ron S.; Shi, Honglue; Yoon, Peter H.; Doherty, Erin E.; Pande, Tara; Iyer, Aditya M.; Doudna, Jennifer A.; Cate, Jamie H. D.
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Eukaryotic RNA-guided endonucleases evolved from a unique clade of bacterial enzymes
err2023-11-16
err11
errOAAI
errYoon, Peter H.; Skopintsev, Petr; Shi, Honglue; Chen, LinXing; Adler, Benjamin A.; Al-Shimary, Muntathar; Craig, Rory J.; Loi, Kenneth J.; DeTurk, Evan C.; Li, Zheng; Amerasekera, Jasmine; Trinidad, Marena; Nisonoff, Hunter; Chen, Kai; Lahiri, Arushi; Boger, Ron; Jacobsen, Steve; Banfield, Jillian F.; Doudna, Jennifer A.
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Identification of GDC-1971 (RLY-1971), a SHP2 Inhibitor Designed for the Treatment of Solid Tumors
err2023-09-29
err16
PREAI
errTaylor, Alexander M.; Williams, Bret R.; Giordanetto, Fabrizio; Kelley, Elizabeth H.; Lescarbeau, Andre; Shortsleeves, Kelley; Tang, Yong; Walters, W. Patrick; Arrazate, Alfonso; Bowman, Christine; Brophy, Erin; Chan, Emily W.; Deshmukh, Gauri; Greisman, Jack B.; Hunsaker, Thomas L.; Kipp, D. Randal; Lopez-Larrocha, Pablo Saenz; Maddalo, Danilo; Martin, Iain J.; Maragakis, Paul; Merchant, Mark; Murcko, Mark; Nisonoff, Hunter; Nguyen, Vi; Nguyen, Vy; Orozco, Olivia; Owen, Christopher; Pierce, Levi; Schmidt, Molly; Shaw, David E.; Smith, Sherri; Therrien, Eric; Tran, John C.; Watters, Jim; Waters, Nigel J.; Wilbur, Jeremy; Willmore, Lindsay
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Discovery and Validation of the Binding Poses of Allosteric Fragment Hits to Protein Tyrosine Phosphatase 1b: From Molecular Dynamics Simulations to X-ray Crystallography
err2023-04-22
err15
errOAAI
errGreisman, Jack B.; Willmore, Lindsay; Yeh, Christine Y.; Giordanetto, Fabrizio; Shahamadtar, Sahar; Nisonoff, Hunter; Maragakis, Paul; Shaw, David E.
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Learning protein fitness models from evolutionary and assay-labeled data
err2022-01-17
err94
errOAAI
errHsu, Chloe; Nisonoff, Hunter; Fannjiang, Clara; Listgarten, Jennifer
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Epistatic Net allows the sparse spectral regularization of deep neural networks for inferring fitness functions
err2021-09-01
err20
errOAAI
errAghazadeh, Amirali; Nisonoff, Hunter; Ocal, Orhan; Brookes, David H.; Huang, Yijie; Koyluoglu, O. Ozan; Listgarten, Jennifer; Ramchandran, Kannan
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XYZeq: Spatially resolved single-cell RNA sequencing reveals expression heterogeneity in the tumor microenvironment
err2021-04-23
err74
errOAAI
errLee, Youjin; Bogdanoff, Derek; Wang, Yutong; Hartoularos, George C.; Woo, Jonathan M.; Mowery, Cody T.; Nisonoff, Hunter M.; Lee, David S.; Sun, Yang; Lee, James; Mehdizadeh, Sadaf; Cantlon, Joshua; Shifrut, Eric; Ngyuen, David N.; Roth, Theodore L.; Song, Yun S.; Marson, Alexander; Chow, Eric D.; Ye, Chun Jimmie
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A Deep-Learning View of Chemical Space Designed to Facilitate Drug Discovery
err2020-07-22
err22
errOAAI
errMaragakis, Paul; Nisonoff, Hunter; Cole, Brian; Shaw, David E.
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OSPREY 3.0: Open-source protein redesign for you, with powerful new features
err2018-10-14
err54
errOAAI
errHallen, Mark A.; Martin, Jeffrey W.; Ojewole, Adegoke; Jou, Jonathan D.; Lowegard, Anna U.; Frenkel, Marcel S.; Gainza, Pablo; Nisonoff, Hunter M.; Mukund, Aditya; Wang, Siyu; Holt, Graham T.; Zhou, David; Dowd, Elizabeth; Donald, Bruce R.
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Algorithms for protein design
err2016-08-01
err68
errOAAI
errGainza, Pablo; Nisonoff, Hunter M.; Donald, Bruce R.
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