Bruce R. Donald

Duke University — United States

Biochemistry, Genetics and Molecular Biology · Life Sciences

55h-index9.2kcitations264works2.62yr avg
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Research Topics

Protein Structure and Dynamics(92), Enzyme Structure and Function(52), Robotic Path Planning Algorithms(50), RNA and protein synthesis mechanisms(45), Modular Robots and Swarm Intelligence(43)

Publications263 total

Cover Image, Volume 94, Issue 1
Proteins Structure Function and Bioinformatics·2025Open Access
<i>CCK</i> * (Convex Closure <i>K</i> *): A Suite of Algorithms for the De Novo Design of L- and D-peptide Binders
2025Open Access
Predicting Pose Distribution of Protein Domains Connected by Flexible Linkers Is an Unsolved Problem
Proteins Structure Function and Bioinformatics·2025· 4 cited
Predicting Affinity Through Homology (PATH): Interpretable binding affinity prediction with persistent homology
PLoS Computational Biology·2025Open Access
Predicting pose distribution of protein domains connected by flexible linkers is an unsolved problem
2025· 6 citedOpen Access
Has AlphaFold 3 Solved the Protein Folding Problem for D-Peptides?
2025· 10 citedOpen Access
Protocol for Designing <i>De Novo</i> Noncanonical Peptide Binders in OSPREY
Journal of Computational Biology·2024Open Access
DexDesign: A new OSPREY-based algorithm for designing <i>de novo</i> D-peptide inhibitors
2024Open Access
DexDesign: an OSPREY-based algorithm for designing <i>de novo</i> D-peptide inhibitors
Protein Engineering Design and Selection·2024· 6 citedOpen Access
DexDesign: A New OSPREY-Based Algorithm for Designing de novo D-peptide Inhibitors
Lecture notes in computer science·2024
Predicting Affinity Through Homology (PATH): Interpretable Binding Affinity Prediction with Persistent Homology
2023· 1 citedOpen Access
Disruptor: Computational identification of oncogenic mutants disrupting protein-protein and protein-DNA interactions
Communications Biology·2023· 3 citedOpen Access
Improved HIV-1 neutralization breadth and potency of V2-apex antibodies by in silico design
Cell Reports·2023· 12 citedOpen Access
Discovery, characterization, and redesign of potent antimicrobial thanatin orthologs from Chinavia ubica and Murgantia histrionica targeting E. coli LptA
Journal of Structural Biology X·2023· 10 citedOpen Access
Protocol for predicting drug-resistant protein mutations to an ERK2 inhibitor using RESISTOR
STAR Protocols·2023· 5 citedOpen Access
Resistor: An algorithm for predicting resistance mutations via Pareto optimization over multistate protein design and mutational signatures
Cell Systems·2022· 8 citedOpen Access
RESISTOR: A New OSPREY Module to Predict Resistance Mutations
Journal of Computational Biology·2022· 4 citedOpen Access
Chiral evasion and stereospecific antifolate resistance in Staphylococcus aureus
PLoS Computational Biology·2022· 14 citedOpen Access
Resistor: an algorithm for predicting resistance mutations using Pareto optimization over multistate protein design and mutational signatures
2022· 1 citedOpen Access
Resistor: An Algorithm for Predicting Resistance Mutations Using Pareto Optimization over Multistate Protein Design and Mutational Signatures
Lecture notes in computer science·2022
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Frequent Co-authors

Ivelin S. Georgiev(9), Ryan Lilien(7), Daniela Rus(6), Amy C. Anderson(6), K. F. Böhringer(6), John Canny(4), Kyle E. Roberts(4), Pablo Gaínza(4), Noel C. MacDonald(4), Mark A. Hallen(3), Christopher G. Levey(3), D.A. Keedy(3), Patrick Xavier(2), John H. Reif(2), Young Do Kwon(2), Cinque Soto(2), Yongping Yang(2), Tongqing Zhou(2), Robert T. Bailer(2), Aliaksandr Druz(2)