☰ Physics Tree

Sagar Khare, Ph.D.

Affiliations:

2006

University of North Carolina, Chapel Hill, Chapel Hill, NC

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Mean distance: 12.5

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Parents

Nikolay Dokholyan	grad student	2006	UNC Chapel Hill
(Biophysical mechanisms of protein aggregation.)
David Baker	post-doc	2005-2012	University of Washington (Computational Biology Tree)

Children

Nancy E. Hernandez	grad student	2013-	Rutgers, New Brunswick
William A Hansen	grad student	2014-	Rutgers, New Brunswick (Chemistry Tree)
Manasi Abhay Pethe	grad student	2012-2017	Rutgers, New Brunswick

Collaborators

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Publications

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Lu C, Lubin JH, Sarma VV, et al. (2023) Prediction and design of protease enzyme specificity using a structure-aware graph convolutional network. Proceedings of the National Academy of Sciences of the United States of America. 120: e2303590120
Hernandez NE, Jankowski W, Frick R, et al. (2023) Corrigendum to "Computational design of nanomolar-binding antibodies specific to multiple SARS-CoV-2 variants by engineering a specificity switch of antibody 80R using RosettaAntibodyDesign (RAbD) results in potential generalizable therapeutic antibodies for novel SARS-CoV-2 virus" [Heliyon 9(4) (April 2023) e15032]. Heliyon. 9: e17901
Hernandez NE, Jankowski W, Frick R, et al. (2023) Computational design of nanomolar-binding antibodies specific to multiple SARS-CoV-2 variants by engineering a specificity switch of antibody 80R using RosettaAntibodyDesign (RAbD) results in potential generalizable therapeutic antibodies for novel SARS-CoV-2 virus. Heliyon. 9: e15032
Ahmad R, Tyryshkin AM, Xie L, et al. (2023) A Bis(imidazole)-based cysteine labeling tool for metalloprotein assembly. Journal of Inorganic Biochemistry. 244: 112206
Lu C, Lubin JH, Sarma VV, et al. (2023) Prediction and Design of Protease Enzyme Specificity Using a Structure-Aware Graph Convolutional Network. Biorxiv : the Preprint Server For Biology
Aggarwal T, Hansen WA, Hong J, et al. (2022) Introducing a New Bond-Forming Activity in an Archaeal DNA Polymerase by Structure-Guided Enzyme Redesign. Acs Chemical Biology
Koehler Leman J, Lyskov S, Lewis SM, et al. (2021) Ensuring scientific reproducibility in bio-macromolecular modeling via extensive, automated benchmarks. Nature Communications. 12: 6947
Yachnin BJ, Mulligan VK, Khare SD, et al. (2021) MHCEpitopeEnergy, a Flexible Rosetta-Based Biotherapeutic Deimmunization Platform. Journal of Chemical Information and Modeling
Hansen WA, Khare SD. (2020) Recent progress in designing protein-based supramolecular assemblies. Current Opinion in Structural Biology. 63: 106-114
Leman JK, Weitzner BD, Lewis SM, et al. (2020) Macromolecular modeling and design in Rosetta: recent methods and frameworks. Nature Methods

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