- Shide Liang, Yaoqi Zhou, Nick V. Grishin, Daron M. Standley. Protein side chain modeling with orientation-dependent atomic force fields derived by series expansions. Journal of Computational Chemistry, 32(8):1680-1686, 2011.
- Zhixiong Lin, Wilfred F. van Gunsteren, Haiyan Liu. Conformational state-specific free energy differences by one-step perturbation: Protein secondary structure preferences of the GROMOS 43A1 and 53A6 force fields. Journal of Computational Chemistry, 32(10):2290-2297, 2011.
- Jae-In Kim, Sungsoo Na, Kilho Eom. Domain decomposition-based structural condensation of large protein structures for understanding their conformational dynamics. Journal of Computational Chemistry, 32(1):161-169, 2011.
- Dongsheng Zou, Zhongshi He, Jingyuan He, Yuxian Xia. Supersecondary structure prediction using Chou s pseudo amino acid composition. Journal of Computational Chemistry, 32(2):271-278, 2011.
- Peipei Han, Kehe Su, Yan Liu, Yanli Wang, Xin Wang, Qingfeng Zeng, Laifei Cheng, Litong Zhang. Reaction rate of propene pyrolysis. Journal of Computational Chemistry, 32(13):2745-2755, 2011.
- Xiao Wei Sheng, Lukasz Mentel, Oleg V. Gritsenko, Evert Jan Baerends. Counterpoise correction is not useful for short and Van der Waals distances but may be useful at long range. Journal of Computational Chemistry, 32(13):2896-2901, 2011.
- Moshe Goldstein, Erick Fredj, R. Benny Gerber. A new hybrid algorithm for finding the lowest minima of potential surfaces: Approach and application to peptides. Journal of Computational Chemistry, 32(9):1785-1800, 2011.
- Aurélien Grosdidier, Vincent Zoete, Olivier Michielin. Fast docking using the CHARMM force field with EADock DSS. Journal of Computational Chemistry, 32(10):2149-2159, 2011.
- Bo Liao, Benyou Liao, Xinguo Lu, Zhi Cao. A novel graphical representation of protein sequences and its application. Journal of Computational Chemistry, 32(12):2539-2544, 2011.
- Xianfeng Li, Robert A. Latour. The temperature intervals with global exchange of replicas empirical accelerated sampling method: Parameter sensitivity and extension to a complex molecular system. Journal of Computational Chemistry, 32(6):1091-1100, 2011.