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JCC
2011
87views more  JCC 2011»
12 years 11 months ago
Determining equilibrium constants for dimerization reactions from molecular dynamics simulations
Abstract: With today’s available computer power, free energy calculations from equilibrium molecular dynamics simulations “via counting” become feasible for an increasing num...
Djurre H. De Jong, Lars V. Schäfer, Alex H. D...
ICRA
2006
IEEE
99views Robotics» more  ICRA 2006»
13 years 11 months ago
Characterization of Protein based Spring-like Elastic Joints for Biorobotic Applications
—This paper presents a molecular mechanics study using a molecular dynamics software (NAMD) for characterization of molecular elastic joints for bio nanorobotic prototyping. Simp...
Mustapha Hamdi, Gaurav Sharma, Antoine Ferreira, C...
JCC
2008
84views more  JCC 2008»
13 years 4 months ago
Explicit ion, implicit water solvation for molecular dynamics of nucleic acids and highly charged molecules
: An explicit ion, implicit water solvent model for molecular dynamics was developed and tested with DNA and RNA simulations. The implicit water model uses the finite difference Po...
Ninad V. Prabhu, Manoranjan Panda, Qingyi Yang, Ki...
CGF
2010
143views more  CGF 2010»
13 years 5 months ago
Coherent Culling and Shading for Large Molecular Dynamics Visualization
Molecular dynamics simulations are a principal tool for studying molecular systems. Such simulations are used to investigate molecular structure, dynamics, and thermodynamical pro...
Sebastian Grottel, Guido Reina, Carsten Dachsbache...
MJ
2008
98views more  MJ 2008»
13 years 4 months ago
Prototyping bio-nanorobots using molecular dynamics simulation and virtual reality
This paper presents a molecular mechanics study using a molecular dynamics software (NAMD) coupled to virtual reality (VR) techniques for intuitive bio-nanorobotic prototyping. Us...
Mustapha Hamdi, Antoine Ferreira, Gaurav Sharma, C...