Publications by Type: Journal Article

2010
J. M. Fonner, Schmidt, C. E., and Ren, P., “A combined molecular dynamics and experimental study of doped polypyrrole,” Polymer, vol. 51, pp. 4985-4993, 2010.
M. M. Nguyen, Abdelmelek, M., Zhang, J., Ren, P., and Suggs, L. J., “DEVELOPING DEPSIPEPTIDES AS BIOMIMETIC STRUCTURES THROUGH SECONDARY STRUCTURE,” Polymer Preprints, vol. 51, pp. 440, 2010.
2009
D. Jiao, Zhang, J., Duke, R. E., Li, G., Schnieders, M. J., and Ren, P., “Trypsin-ligand binding free energies from explicit and implicit solvent simulations with polarizable potential,” Journal of computational chemistry, vol. 30, pp. 1701–1711, 2009.
D. Jiao, Zhang, J., Duke, R. E., Li, G., Schnieders, M. J., and Ren, P., “Trypsin-ligand binding free energies from explicit and implicit solvent simulations with polarizable potential,” Journal of computational chemistry, vol. 30, pp. 1701–1711, 2009.
J. C. Wu, Gardner, D. P., Ozer, S., Gutell, R. R., and Ren, P., “Correlation of RNA secondary structure statistics with thermodynamic stability and applications to folding,” Journal of molecular biology, vol. 391, pp. 769–783, 2009.
2008
D. Jiao, Golubkov, P. A., Darden, T. A., and Ren, P., “Calculation of protein–ligand binding free energy by using a polarizable potential,” Proceedings of the National Academy of Sciences, vol. 105, pp. 6290–6295, 2008.
H. - X. Li, Hwang, B. - Y., Laxmikanthan, G., Blaber, S. I., Blaber, M., Golubkov, P. A., Ren, P., Iverson, B. L., and Georgiou, G., “Substrate specificity of human kallikreins 1 and 6 determined by phage display,” Protein Science, vol. 17, pp. 664–672, 2008.
H. - X. Li, Hwang, B. - Y., Laxmikanthan, G., Blaber, S. I., Blaber, M., Golubkov, P. A., Ren, P., Iverson, B. L., and Georgiou, G., “Substrate specificity of human kallikreins 1 and 6 determined by phage display,” Protein Science, vol. 17, pp. 664–672, 2008.
P. A. Golubkov, Wu, J. C., and Ren, P., “A transferable coarse-grained model for hydrogen-bonding liquids,” Physical chemistry chemical Physics, vol. 10, pp. 2050–2057, 2008.
D. Jiao, Golubkov, P. A., Darden, T. A., and Ren, P., “Calculation of protein–ligand binding free energy by using a polarizable potential,” Proceedings of the National Academy of Sciences, vol. 105, pp. 6290–6295, 2008.
D. Jiao, Golubkov, P. A., Darden, T. A., and Ren, P., “Calculation of protein–ligand binding free energy by using a polarizable potential,” Proceedings of the National Academy of Sciences, vol. 105, pp. 6290-6295, 2008.
H. - X. Li, Hwang, B. - Y., Laxmikanthan, G., Blaber, S. I., Blaber, M., Golubkov, P. A., Ren, P., Iverson, B. L., and Georgiou, G., “Substrate specificity of human kallikreins 1 and 6 determined by phage display,” Protein Science, vol. 17, pp. 664-672, 2008.
P. A. Golubkov, Wu, J. C., and Ren, P., “A transferable coarse-grained model for hydrogen-bonding liquids,” Physical Chemistry Chemical Physics, vol. 10, pp. 2050-2057, 2008.
2007
T. D. Rasmussen, Ren, P., Ponder, J. W., and Jensen, F., “Force field modeling of conformational energies: importance of multipole moments and intramolecular polarization,” International Journal of Quantum Chemistry, vol. 107, pp. 1390–1395, 2007.
M. J. Schnieders, Baker, N. A., Ren, P., and Ponder, J. W., “Polarizable atomic multipole solutes in a Poisson-Boltzmann continuum,” The Journal of chemical physics, vol. 126, pp. 03B623, 2007.
T. D. Rasmussen, Ren, P., Ponder, J. W., and Jensen, F., “Force field modeling of conformational energies: importance of multipole moments and intramolecular polarization,” International Journal of Quantum Chemistry, vol. 107, pp. 1390–1395, 2007.
J. Zhang, King, M., Suggs, L., and Ren, P., “Molecular modeling of conformational properties of oligodepsipeptides,” Biomacromolecules, vol. 8, pp. 3015–3024, 2007.
T. D. Rasmussen, Ren, P., Ponder, J. W., and Jensen, F., “Force field modeling of conformational energies: importance of multipole moments and intramolecular polarization,” International Journal of Quantum Chemistry, vol. 107, pp. 1390-1395, 2007.
J. Zhang, King, M., Suggs, L., and Ren, P., “Molecular modeling of conformational properties of oligodepsipeptides,” Biomacromolecules, vol. 8, pp. 3015-3024, 2007.
M. J. Schnieders, Baker, N. A., Ren, P., and Ponder, J. W., “Polarizable atomic multipole solutes in a Poisson-Boltzmann continuum,” The Journal of chemical physics, vol. 126, pp. 124114, 2007.

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