Rice University

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BCC

Publications

Found 879 results
2010
Burger A., Walczak A.M, Wolynes P.G.  2010.  Abduction and asylum in the lives of transcription factors. Proc. Nat. Acad. Sci. USA. 107:4016-4021.
Whitford P.C, Geggier P., Altman R.B, Blanchard S.C, Onuchic J.N, Sanbonmatsu K.Y.  2010.  Accommodation of aminoacyl-tRNA into the ribosome involves reversible excursions along multiple pathways. 16:1196-1204.
Lu B.Z, Cheng X.L, Huang J.F, McCammon J.A.  2010.  AFMPB: An adaptive fast multipole, Poisson-Boltzmann solver for calculating electrostatics in biomolecular systems. Comp. Phys. Comm.. 181:1150-1160.
Ben-Jacob E., Schultz D..  2010.  Bacteria determine fate by playing dice with controlled odds. Proc. Nat. Acad. Sci. USA. 107:13197-13198.
Huber G.A, McCammon J.A.  2010.  Browndye: A software package for Brownian dynamics. Comp. Phys. Comm.. 181:1896-1905.
Trizac E., Levy Y., Wolynes P.G.  2010.  Capillarity theory for the fly-casting mechanism. Proc. Nat. Acad. Sci. USA. 107:2746-2750.
Bauler P., Huber G., Leyh T., McCammon J.A.  2010.  Channeling by Proximity: The Catalytic Advantages of Active Site Colocalization Using Brownian Dynamics. 1:1332-1335.
Hermsen R, Ursem B, Wolde PRein ten.  2010.  Combinatorial Gene Regulation Using Auto-Regulation. Plos Comp. Biol.. 6
Modchang C., Nadkarni S., Bartol T.M, Triampo W., Sejnowski T.J, Levine H., Rappel W.J.  2010.  A comparison of deterministic and stochastic simulations of neuronal vesicle release models. Physical Biology. 7
Durrant J.D, Keranen H., Wilson B.A, McCammon J.A.  2010.  Computational Identification of Uncharacterized Cruzain Binding Sites. Plos Neglected Tropical Diseases. 4
Shao D.Y, Rappel W.J, Levine H..  2010.  Computational Model for Cell Morphodynamics. Physical Review Letters. 105
Schug A., Weigt M., Hoch J.A, Onuchic J.N, Hwa T., Szurmant H..  2010.  Computational Modeling of Phosphotransfer Complexes in Two-Component Signaling. 471:43-58.
Durrant JD, J. McCammon A.  2010.  Computer-aided drug-discovery techniques that account for receptor flexibility. 10:770-774.
Durrant J.D, Urbaniak M.D, Ferguson M.AJ, McCammon J.A.  2010.  Computer-Aided Identification of Trypanosoma brucei Uridine Diphosphate Galactose 4 '-Epimerase Inhibitors: Toward the Development of Novel Therapies for African Sleeping Sickness. 53:5025-5032.
Peric-Hassler L., Hansen H.S, Baron R., Hunenberger P.H.  2010.  Conformational properties of glucose-based disaccharides investigated using molecular dynamics simulations with local elevation umbrella sampling. Carbohydrate Research. 345:1781-1801.
Grant B.J, McCammon J.A, Gorfe A.A.  2010.  Conformational Selection in G-Proteins Lessons from Ras and Rho. Biophys. J.. 99:L87-L89.
Whitford P.C, Onuchic J.N, Sanbonmatsu K.Y.  2010.  Connecting Energy Landscapes with Experimental Rates for Aminoacyl-tRNA Accommodation in the Ribosome. J. Am. Chem. Soc.. 132:13170-13171.
Williams S.L, de Oliveira C.AF, McCammon J.A.  2010.  Coupling Constant pH Molecular Dynamics with Accelerated Molecular Dynamics. J. Chem. Theor. Comp.. 6:560-568.
Abarbanel H.D., Kostuk M., Whartenby W..  2010.  Data Assimilation with Regularized Nonlinear Instabilities. Quarterly J. Royal Meteorological Soc.. 136:769-783.
Warren M., Rottler J..  2010.  Deformation-induced accelerated dynamics in polymer glasses. Journal of Chemical Physics. 133
Sierecki E., Sinko W., McCammon J.A, Newton A.C.  2010.  Discovery of Small Molecule Inhibitors of the PH Domain Leucine-Rich Repeat Protein Phosphatase (PHLPP) by Chemical and Virtual Screening. 53:6899-6911.
Lukman S., Grant B.J, Gorfe A.A, Grant G.H, McCammon J.A.  2010.  The Distinct Conformational Dynamics of K-Ras and H-Ras A59G. Plos Comp. Biol.. 6
Imaizumi K., Priebe N., Sharpee T.O, Cheung S., Schreiner C.E..  2010.  Encoding of temporal information by timing, rate, and place in cat auditory cortex. Plos One. 5:e11531.
Prentiss MC, Wales DJ, Wolynes PG.  2010.  The Energy Landscape, Folding Pathways and the Kinetics of a Knotted Protein. Plos Comp. Biol.. 6

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