R. Lall, T. J. Donohue, S. Marino and J. C. Mitchell. Optimizing Ethanol Production Selectivity. Mathematical and Computer Modelling, (in press) 2010. View Abstract
O. N. A. Demerdash, M. D. Daily, J. C. Mitchell. Structure-Based Predictive Models for Allosteric Hot Spots. PLoS Computational Biology, 5(10):e1000531, 2009. View Abstract
D. Dynerman, E. Butzlaff and J. C. Mitchell. CUSA and CUDE: GPU-accelerated methods for estimating solvent accessible surface area and desolvation. Journal of Computational Biology, 16(4): 523-537, 2009. View Abstract
A. Yershova, S. Jain, S. M. LaValle, and J. C. Mitchell. Generating Uniform Incremental Grids on SO(3) Using the Hopf Fibration. International Journal of Robotics Research, November 2009. View Abstract
R. M. Bannen, V. Suresh, G. N. Phillips Jr., S. J. Wright and J. C. Mitchell. Optimal Design of Thermally Stable Proteins Bioinformatics, 24(20): 2339-2343, 2008. View Abstract
S. J. Darnell, L. LeGault and J. C. Mitchell. KFC Server: Interactive forecasting of protein interaction hot spots. Nucleic Acids Research, 36: W265-269, 2008. View Abstract
A. Yershova, S. M. LaValle, and J. C. Mitchell. Generating Uniform Incremental Grids on SO(3) Using the Hopf Fibration, In Proc. Eighth International Workshop on the Algorithmic Foundations of Robotics WAFR 2008.
R. Lall and J. C. Mitchell. Metal Reduction Kinetics in Shewanella. Bioinformatics, 23(20):2754-2759, 2007. View Abstract
J. C. Mitchell. Discrete Uniform Sampling of Rotation Groups Using Orthogonal Images. SIAM Journal of Scientific Computing, 30(1):525-547, 2007. View Abstract
S. J. Darnell, D. Page, and J. C. Mitchell. Automated Decision-Tree Approach to Predicting Protein-Protein Interaction Hot Spots. Proteins, 68(4): 813-823, 2007. View Abstract
K. L. Lynch, R.R.L. Gerona, E. C. Larsen, R. F. Marcia, J. C. Mitchell, and T.F.J. Martin. Synaptotagmin C2A Loop 2 Mediates Ca2+-dependent SNARE Interactions Essential for Ca2+-triggered Vesicle Exocytosis. Molecular Biology of the Cell, 18(12): 4957, 2007 View Abstract
R. F. Marcia, J. C. Mitchell, and J. B. Rosen. Multi-funnel optimization using Gaussian Underestimation. J. Glob. Opt. 39(1): 39-48, 2007. View Abstract
R. F. Marcia, J. C. Mitchell, and S. J. Wright. Global Optimization in Protein Docking Using Convex Underestimation and Semidefinite Programming. Optimization Methods and Software 22(5): 803-811, 2007. View Abstract
R. H. Kedlaya, K. M. Bhat, J. C. Mitchell, S. J. Darnell and V. Setaluri. TRP1 interacting PDZ-domain protein GIPC forms oligomers and is localized to intracellular vesicles in human melanocytes. Arch Biochem Biophys. 452(2): 160-169, 2006. (Cover article). View Abstract
T. J. Rutkoski, E. L. Kurten, J. C. Mitchell, and R. T. Raines. Disruption of shape complementarity markers to create cytotoxic variants of ribonuclease A. J. Mol. Biol. 354: 41-54, 2005. (Cover article). View Abstract
R. F. Marcia, J. C. Mitchell and J. B. Rosen, Iterative Convex Quadratic Approximation for Global Optimization in Protein Docking. Comp. Opt. Appl. 32(3): 285-297, 2005. View Abstract
J. C. Mitchell, S. Shahbaz and L. F. Ten Eyck, Interfaces in molecular docking. Molecular Simulation 30(2-3):97-106, 2004. View Abstract
J. P. Zbilut, J. C. Mitchell, A. Giuliani, A. Colosimo, N. Marwan, C. L. Webber Jr., Singular Hydrophobicity Patterns and Net Charge: A Mesoscopic Principle for Protein Aggregation/Folding. Physica A 343: 348-358, 2004. View Abstract
J. P. Zbilut, A. Giuliani, A. Colosimo, J. C. Mitchell, M. Colafranceschi, N. Marwan, C. L. Webber Jr., V. N. Uversky, Charge and Hydrophobicity Patterning Along the Sequence Predicts the Folding Mechanism and Aggregation of Proteins: a Computational Approach. J. Proteome Res 3: 1243-1253, 2004. View Abstract
D. H. Law, L. F. Ten Eyck, O. Katzenelson, I. Tsigelny, V. A. Roberts, M. E. Pique and J. C. Mitchell, Finding needles in haystacks: Re-ranking DOT results using shape complementarity, cluster analysis and biological information. Proteins 53: 33-40, 2003. View Abstract
J. C. Mitchell, R. Kerr and L. F. Ten Eyck, Rapid atomic density measures for molecular shape characterization, J. Mol. Graph. Model., 19(3): 325-330, 2001. View Abstract
J. G. Mandell, V. A. Roberts, M. E. Pique, V. Kotlovyi, J. C. Mitchell, E. Nelson, I. Tsigelny and L. F. Ten Eyck., Protein docking using continuum electrostatics and geometric fit, Protein Engineering, 14(2): 105-113, 2001. View Abstract
J. C. Mitchell, A. T. Phillips, J. B. Rosen and L. F. Ten Eyck, A coupled scanning and optimization scheme for analyzing molecular interactions, Optimization in Computational Chemistry and Molecular Biology.; Kluwer Academic Press. pp 190-207, 2000.
J. C. Mitchell, A. T. Phillips, J. B. Rosen, and L. F. Ten Eyck, Coupled optimization in protein docking, Proceedings of the Third Annual International Conference on Computational Molecular Biology (RECOMB99).,ACM Press, New York. pp. 180-184, 1999. View Abstract
