Assuring accuracy and efficiency
In simulations of human activities such as running, hundreds of individual musculotendon models turn on and off to swing the arms and legs. Naturally, these simulations can only be as accurate and...
Jun, 19, 2013
T-Rex in the Slow Lane
by Kristen Cobb
Tyrannosaurus rex is often pictured baring its teeth, crouching, and running swiftly after its prey, but these images are largely based on human fancy...
Jan, 01, 2006
In March, Simbios released version 1.0 of the SimTK Simulation toolkit. A cornerstone of this release is Simbody, a new piece of the open-source SimTK Core toolkit for physics-based simulation....
Mar, 31, 2008
Michael Levitt, professor of structural biology at Stanford University, has received the 2013 Nobel Prize in Chemistry in recognition of his pioneering work in computational biology.
“...
Oct, 10, 2013
ForceBalance makes it easier to efficiently develop and optimize force fields
When simulating the movements of large molecules on a computer, researchers typically rely on an approximation of the force fields at play. That’s because a truly correct simulation of those...
Aug, 31, 2013
The yield: an unprecedented and insightful millisecond simulation
Despite being well-studied, much remains unknown about the dynamics of G-protein coupled receptors (GPCRs), molecules that are prominent drug targets. Recent work published in the journal Nature...
Mar, 01, 2014
Now, with just a few mouse clicks, anyone with a computer and an Internet connection can create graphic images of RNA molecules (using ToRNADo) or generate the ion environments that surround these...
Dec, 31, 2006
OpenMM provides a common interface for doing MD simulations on GPUs
Over the last three years, the lab of Vijay Pande, PhD, at Stanford University has optimized their molecular dynamics (MD) algorithms to take advantage of the fast computing that’s possible...
Jun, 30, 2008
Researchers can now create musculoskeletal models and simulations on an open source platform. In August, Simbios researchers released OpenSim 1.0. This freely available software can, in about 20...
Sep, 30, 2007
Simulating molecular movement gives a more accurate view of binding sites.
If a picture’s worth a thousand words, then a motion picture, such as that provided by molecular dynamics (MD) simulations, must contain a wealth of information. It’s this potential...
Sep, 30, 2008
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