José N. Onuchic

Center for Theoretical Biological Physics — United States

Biochemistry, Genetics and Molecular Biology · Life Sciences

103h-index44.5kcitations611works6.12yr avg
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Research Topics

Protein Structure and Dynamics(211), Enzyme Structure and Function(122), RNA and protein synthesis mechanisms(105), Spectroscopy and Quantum Chemical Studies(53), Photosynthetic Processes and Mechanisms(46)

Publications611 total

A biophysical framework for accurately identifying antigen single-amino acid escape variants and corresponding variant-specific compensatory TCR sequences
2026Open Access
A data-driven chromatin model reveals spatial and dynamic features of genome organization
Proceedings of the National Academy of Sciences·2026Open Access
Quantum simulation of charge and exciton transfer in multi-mode models using engineered reservoirs
Nature Communications·2025Open Access
Epigenetics is all you need: A transformer to decode chromatin structural compartments from the epigenome
PLoS Computational Biology·2025Open Access
Sequence-based calculation of local energetic frustration in proteins
Structural Dynamics·2025Open Access
Mapping the energy landscape of a fold‐switching protein <scp>MAD2</scp>
Protein Science·2025
Critical Role of Mg<sup>2+</sup> Ions in RNA Folding Transitions: Anchoring the A-Minor Twist in the SAM-II Riboswitch
The Journal of Physical Chemistry B·2025· 3 citedOpen Access
Quantum Simulation of Charge and Exciton Transfer in Multi-mode Models with Engineered Reservoirs
2025· 1 citedOpen Access
Conformational ligand-directed targeting of calcium-dependent receptors in acute trauma
Med·2025Open Access
Quantum Simulation of Charge and Exciton Transfer in Multi-mode Models using Engineered Reservoirs
arXiv (Cornell University)·2025Open Access
Computational modeling of cancer cell metabolism along the catabolic-anabolic axes
npj Systems Biology and Applications·2025· 5 citedOpen Access
Simulating biomolecules for physiological timescales
Current Opinion in Structural Biology·2025· 7 cited
The need to implement FAIR principles in biomolecular simulations
Nature Methods·2025· 38 citedOpen Access
Energy landscape analysis of the development of the chromosome structure across the cell cycle
Proceedings of the National Academy of Sciences·2025· 5 citedOpen Access
The synergy between compartmentalization and motorization in chromatin architecture
The Journal of Chemical Physics·2025· 1 cited
Conformational heterogeneity in the dGsw purine riboswitch: role of Mg²⁺ and 2’-dG in aptamer folding
RNA·2025· 2 cited
Evolving concepts of the protein universe
iScience·2025· 7 citedOpen Access
BPS2025 - Structure and inhibition of SARS-CoV-2 spike refolding in membranes
Biophysical Journal·2025
Biguanides antithetically regulate tumor properties by the dose-dependent mitochondrial reprogramming-driven c-Src pathway
Cell Reports Medicine·2025· 9 citedOpen Access
Energy landscapes in protein folding
Elsevier eBooks·2025
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Frequent Co-authors

Peter G. Wolynes(16), Yaakov Levy(6), David N. Beratan(5), Michele Di Pierro(5), Erez Lieberman Aiden(5), Herbert Levine(5), Paul C. Whitford(5), Nicholas D. Socci(4), Mingyang Lu(4), Eshel Ben‐Jacob(4), Angel E. Garcı́a(4), Zaida Luthey‐Schulten(3), Hugh Nymeyer(3), Suhas S.P. Rao(3), Jeffrey K. Noel(3), Dongya Jia(3), Faruck Morcos(2), Terence Hwa(2), Martin Weigt(2), Cecilia Clementi(2)