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Journal of Molecular Biology|August 30, 2003
Sequence optimization for native state stability determines the evolution and folding kinetics of a small proteinStefan M Larson, Vijay S PandeProteins|April 16, 2003
Increased detection of structural templates using alignments of designed sequencesStefan M Larson, Amit Garg, John R Desjarlais, et al.Protein Science : a Publication of the Protein Society|November 21, 2002
Thoroughly sampling sequence space: large-scale protein design of structural ensemblesStefan M Larson, Jeremy L England, John R Desjarlais, et al.The Journal of Chemical Physics|December 15, 2005
Error analysis and efficient sampling in Markovian state models for molecular dynamicsNina Singhal, Vijay S PandeJournal of the American Chemical Society|September 7, 2006
Simulated unfolded-state ensemble and the experimental NMR structures of villin headpiece yield similar wide-angle solution X-ray scattering profilesBojan Zagrovic, Vijay S PandeComputing in Science & Engineering|July 7, 2015
OpenMM: A Hardware Independent Framework for Molecular SimulationsPeter Eastman, Vijay S PandePhysical Review. E, Statistical, Nonlinear, and Soft Matter Physics|August 7, 2007
Choosing weights for simulated temperingSanghyun Park, Vijay S PandeThe Journal of Chemical Physics|February 14, 2006
Validation of Markov state models using Shannon's entropySanghyun Park, Vijay S PandeNature Structural Biology|October 14, 2003
Structural correspondence between the alpha-helix and the random-flight chain resolves how unfolded proteins can have native-like propertiesBojan Zagrovic, Vijay S PandePageof 26