FIND

researchers

DISCOVER

relevant articles

PROMOTE

your research

now for free

Bruce Randall Donald

Research Profile

Concepts & Ideas

Phenomena

Magnetic Resonance Spectroscopy

Chemicals & Drugs

Activities & Behaviors

Computer Simulation

Procedures

Genes & Molecular Sequences

Amino Acid Sequences

Occupations

Computational Biology

Co-author Network

Publications

TOP 3
Pablo Gainza; Ivelin Georgiev; Daniel A Keedy; Ryan H Lilien; Faisal Reza; David C Richardson; Jane S Richardson; Kyle E Roberts; Amy C Anderson; Cheng-Yu Chen; Bruce Randall Donald
OSPREY: protein design with ensembles, flexibility, and provable algorithms.
Jianyang Zeng; Pei Zhou; Bruce Randall Donald
HASH: a program to accurately predict protein Hα shifts from neighboring backbone shifts.
Mark A Hallen; Daniel A Keedy; Bruce Randall Donald
Dead-end elimination with perturbations (DEEPer): a provable protein design algorithm with continuous sidechain and backbone flexibility.

Register for free to view:

Visualized networks:

See your personal network in
sophisticated graphical views

GeoTargeted Searches:

Locate experts around the world
and connect with global collaborators

Research Profiles:

See the research activity
of experts around the globe

Geonetwork of Bruce Randall Donald (preview)

Cities where this author has publications
Cities where co-authors of this author have publications

Flash Player Required

All Publications

2013: Pablo Gainza; Ivelin Georgiev; Daniel A Keedy; Ryan H Lilien; Faisal Reza; David C Richardson; Jane S Richardson; Kyle E Roberts; Amy C Anderson; Cheng-Yu Chen; Bruce Randall Donald
OSPREY: protein design with ensembles, flexibility, and provable algorithms.
Methods in enzymology 2013;523():87-107.
2013: Jianyang Zeng; Pei Zhou; Bruce Randall Donald
HASH: a program to accurately predict protein Hα shifts from neighboring backbone shifts.
Journal of biomolecular NMR 2013;55(1):105-18.
2013: Mark A Hallen; Daniel A Keedy; Bruce Randall Donald
Dead-end elimination with perturbations (DEEPer): a provable protein design algorithm with continuous sidechain and backbone flexibility.
Proteins 2013;81(1):18-39.
2011: Himanshu Chandola; Bruce Randall Donald; Shobha Potluri; Anthony K Yan; Chris Bailey-Kellogg
NMR structural inference of symmetric homo-oligomers.
Journal of computational biology : a journal of computational molecular cell biology 2011;18(12):1757-75.
2011: Jeffrey W Martin; Anthony K Yan; Pei Zhou; Chris Bailey-Kellogg; Bruce Randall Donald
A geometric arrangement algorithm for structure determination of symmetric protein homo-oligomers from NOEs and RDCs.
Journal of computational biology : a journal of computational molecular cell biology 2011;18(11):1507-23.
2011: Jianyang Zeng; Pei Zhou; Kyle E Roberts; Bruce Randall Donald
A Bayesian approach for determining protein side-chain rotamer conformations using unassigned NOE data.
Journal of computational biology : a journal of computational molecular cell biology 2011;18(11):1661-79.
2011: Jeffrey W Martin; Anthony K Yan; Chris Bailey-Kellogg; Pei Zhou; Bruce Randall Donald
A graphical method for analyzing distance restraints using residual dipolar couplings for structure determination of symmetric protein homo-oligomers.
Protein science : a publication of the Protein Society 2011;20(6):970-85.
2009: Jianyang Zeng; Jeffrey Boyles; Chittaranjan Tripathy; Lincong Wang; Anthony Yan; Pei Zhou; Bruce Randall Donald
High-resolution protein structure determination starting with a global fold calculated from exact solutions to the RDC equations.
Journal of biomolecular NMR 2009;45(3):265-81.
2008: Ivelin Georgiev; Daniel Keedy; Jane S Richardson; David C Richardson; Bruce Randall Donald
Algorithm for backrub motions in protein design.
Bioinformatics (Oxford, England) 2008;24(13):i196-204.
2008: Mehmet Serkan Apaydin; Vincent Conitzer; Bruce Randall Donald
Structure-based protein NMR assignments using native structural ensembles.
Journal of biomolecular NMR 2008;40(4):263-76.
2008: Jianyang Zeng; Chittaranjan Tripathy; Pei Zhou; Bruce Randall Donald
A Hausdorff-based NOE assignment algorithm using protein backbone determined from residual dipolar couplings and rotamer patterns.
Computational systems bioinformatics / Life Sciences Society. Computational Systems Bioinformatics Conference 2008;7():169-81.
2007: Michael J Gorczynski; Jolanta Grembecka; Yunpeng Zhou; Yali Kong; Liya Roudaia; Mike Douvas; Miki Newman; Izabela Bielnicka; Gwen Baber; Takeshi Corpora; Jianxia Shi; Mohini Sridharan; Ryan H Lilien; Bruce Randall Donald; Nancy A Speck; Milton L Brown; John H Bushweller
Allosteric inhibition of the protein-protein interaction between the leukemia-associated proteins Runx1 and CBFbeta.
Chemistry & biology 2007;14(10):1186-97.
2007: Ivelin Georgiev; Bruce Randall Donald
Dead-end elimination with backbone flexibility.
Bioinformatics (Oxford, England) 2007;23(13):i185-94.
2007: Shobha Potluri; Anthony K Yan; Bruce Randall Donald; Chris Bailey-Kellogg
A complete algorithm to resolve ambiguity for intersubunit NOE assignment in structure determination of symmetric homo-oligomers.
Protein science : a publication of the Protein Society 2007;16(1):69-81.
2006: Brian W Stevens; Ryan H Lilien; Ivelin Georgiev; Bruce Randall Donald; Amy C Anderson
Redesigning the PheA domain of gramicidin synthetase leads to a new understanding of the enzyme's mechanism and selectivity.
Biochemistry 2006;45(51):15495-504.
2006: Shobha Potluri; Anthony K Yan; James J Chou; Bruce Randall Donald; Chris Bailey-Kellogg
Structure determination of symmetric homo-oligomers by a complete search of symmetry configuration space, using NMR restraints and van der Waals packing.
Proteins 2006;65(1):203-19.
2006: Lincong Wang; Ramgopal R Mettu; Bruce Randall Donald
A polynomial-time algorithm for de novo protein backbone structure determination from nuclear magnetic resonance data.
Journal of computational biology : a journal of computational molecular cell biology 2006;13(7):1267-88.
2006: Ivelin Georgiev; Ryan H Lilien; Bruce Randall Donald
Improved Pruning algorithms and Divide-and-Conquer strategies for Dead-End Elimination, with application to protein design.
Bioinformatics (Oxford, England) 2006;22(14):e174-83.
2006: Lincong Wang; Bruce Randall Donald
A data-driven, systematic search algorithm for structure determination of denatured or disordered proteins.
Computational systems bioinformatics / Life Sciences Society. Computational Systems Bioinformatics Conference 2006;():67-78.
2005: Ryan H Lilien; Brian W Stevens; Amy C Anderson; Bruce Randall Donald
A novel ensemble-based scoring and search algorithm for protein redesign and its application to modify the substrate specificity of the gramicidin synthetase a phenylalanine adenylation enzyme.
Journal of computational biology : a journal of computational molecular cell biology 2005;12(6):740-61.
2005: Ramgopal R Mettu; Ryan H Lilien; Bruce Randall Donald
High-throughput inference of protein-protein interfaces from unassigned NMR data.
Bioinformatics (Oxford, England) 2005;21 Suppl 1():i292-301.
2005: Lincong Wang; Ramgopal R Mettu; Bruce Randall Donald
An algebraic geometry approach to protein structure determination from NMR data.
Proceedings / IEEE Computational Systems Bioinformatics Conference, CSB. IEEE Computational Systems Bioinformatics Conference 2005;():235-46.
2005: Lincong Wang; Bruce Randall Donald
An efficient and accurate algorithm for assigning nuclear overhauser effect restraints using a rotamer library ensemble and residual dipolar couplings.
Proceedings / IEEE Computational Systems Bioinformatics Conference, CSB. IEEE Computational Systems Bioinformatics Conference 2005;():189-202.
2004: Lincong Wang; Bruce Randall Donald
Exact solutions for internuclear vectors and backbone dihedral angles from NH residual dipolar couplings in two media, and their application in a systematic search algorithm for determining protein backbone structure.
Journal of biomolecular NMR 2004;29(3):223-42.
2004: Ryan H Lilien; Chris Bailey-Kellogg; Amy C Anderson; Bruce Randall Donald
A subgroup algorithm to identify cross-rotation peaks consistent with non-crystallographic symmetry.
Acta crystallographica. Section D, Biological crystallography 2004;60(Pt 6):1057-67.
2004: Christopher James Langmead; Bruce Randall Donald
An expectation/maximization nuclear vector replacement algorithm for automated NMR resonance assignments.
Journal of biomolecular NMR 2004;29(2):111-38.
2004: Lincong Wang; Bruce Randall Donald
Analysis of a systematic search-based algorithm for determining protein backbone structure from a minimum number of residual dipolar couplings.
Proceedings / IEEE Computational Systems Bioinformatics Conference, CSB. IEEE Computational Systems Bioinformatics Conference 2004;():319-30.
2004: Christopher James Langmead; Bruce Randall Donald
High-throughput 3D structural homology detection via NMR resonance assignment.
Proceedings / IEEE Computational Systems Bioinformatics Conference, CSB. IEEE Computational Systems Bioinformatics Conference 2004;():278-89.
2004: Christopher James Langmead; Anthony Yan; Ryan H Lilien; Lincong Wang; Bruce Randall Donald
A polynomial-time nuclear vector replacement algorithm for automated NMR resonance assignments.
Journal of computational biology : a journal of computational molecular cell biology 2004;11(2-3):277-98.
2003: Robert H O'Neil; Ryan H Lilien; Bruce Randall Donald; Robert M Stroud; Amy C Anderson
Phylogenetic classification of protozoa based on the structure of the linker domain in the bifunctional enzyme, dihydrofolate reductase-thymidylate synthase.
The Journal of biological chemistry 2003;278(52):52980-7.
2003: Christopher James Langmead; Bruce Randall Donald
3D structural homology detection via unassigned residual dipolar couplings.
Proceedings / IEEE Computer Society Bioinformatics Conference. IEEE Computer Society Bioinformatics Conference 2003;2():209-17.
2003: Ryan H Lilien; Hany Farid; Bruce Randall Donald
Probabilistic disease classification of expression-dependent proteomic data from mass spectrometry of human serum.
Journal of computational biology : a journal of computational molecular cell biology 2003;10(6):925-46.
2003: Robert H O'Neil; Ryan H Lilien; Bruce Randall Donald; Robert M Stroud; Amy C Anderson
The crystal structure of dihydrofolate reductase-thymidylate synthase from Cryptosporidium hominis reveals a novel architecture for the bifunctional enzyme.
The Journal of eukaryotic microbiology 2003;50 Suppl():555-6.
2003: Christopher James Langmead; Anthony K Yan; C Robertson McClung; Bruce Randall Donald
Phase-independent rhythmic analysis of genome-wide expression patterns.
Journal of computational biology : a journal of computational molecular cell biology 2003;10(3-4):521-36.
2002: Christopher James Langmead; C Robertson McClung; Bruce Randall Donald
A maximum entropy algorithm for rhythmic analysis of genome-wide expression patterns.
Proceedings / IEEE Computer Society Bioinformatics Conference. IEEE Computer Society Bioinformatics Conference 2002;1():237-45.
2001: Chris Bailey-Kellogg; JJ Kelley; C Stein; Bruce Randall Donald
Reducing mass degeneracy in SAR by MS by stable isotopic labeling.
Journal of computational biology : a journal of computational molecular cell biology 2001;8(1):19-36.
2000: Chris Bailey-Kellogg; A Widge; JJ Kelley; MJ Berardi; John H Bushweller; Bruce Randall Donald
The NOESY jigsaw: automated protein secondary structure and main-chain assignment from sparse, unassigned NMR data.
Journal of computational biology : a journal of computational molecular cell biology 2000;7(3-4):537-58.
2000: Chris Bailey-Kellogg; JJ Kelley; C Stein; Bruce Randall Donald
Reducing mass degeneracy in SAR by MS by stable isotopic labeling.
Proceedings / ... International Conference on Intelligent Systems for Molecular Biology ; ISMB. International Conference on Intelligent Systems for Molecular Biology 2000;8():13-24.