Using molecular dynamics (MD) software, scientists can simulate molecular movement to study biological phenomena that currently cannot be observed experimentally.
But the value of MD...
Jul, 01, 2009
University of Florida’s B.J. Fregly hopes to use OpenSim to simulate the knee.
from http://biomedicalcomputationreview.org/content/simbios-bringing-biomedical-simulation-your-fingertips
B.J. Fregly, PhD, associate professor of mechanical and aerospace engineering and of...
Oct, 01, 2009
LoopTK samples and visualizes many conformations of a protein loop to better understand loop movement
In the gaps between the tight coils and flattened sheets that comprise most protein structures, flexible loops wave and bend. When crystallized, these loops can appear fuzzy in an electron density...
Jul, 01, 2007
OpenSim 2.0 promises greater opportunities for customization
With its initial release two years ago, OpenSim offered researchers a powerful open-source application for simulating movement. Simple enough to be used by high school students yet advanced enough to...
Jan, 01, 2010
Even when we simply stand still on two feet, our brains communicate with our muscles—firing them appropriately to keep us upright against gravity. So when scientists simulate simple or complex...
Jun, 06, 2012
Six startups jockey for a place at the table. Who will succeed?
A handful of startups are wagering that genome interpretation is the next big thing.
Why is this business space so hot? “Once you can produce a better faster genome, thanks...
Jun, 20, 2013
Biomodels curates and annotates models for public use
As systems biologists develop models that attempt to simulate life, they need a good way to make them accessible to others as well as a good way to access other people’s models—and to...
Sep, 01, 2005
Kim Branson of Vertex Pharmaceuticals uses OpenMM as the GPU accelerator for Yank, a program for quickly estimating molecular binding affinities that he’s building with collaborators from Pande’s lab.
from http://biomedicalcomputationreview.org/content/simbios-bringing-biomedical-simulation-your-fingertips
Kim Branson, PhD, a research scientist in the modeling and simulation group at Vertex...
Oct, 01, 2009
University of California, San Diego’s Alison Marsden uses SimVascular to do patient-specific modeling of blood flow for surgical applications.
from http://biomedicalcomputationreview.org/content/simbios-bringing-biomedical-simulation-your-fingertips
Alison Marsden, PhD, an assistant professor of mechanical and aerospace engineering...
Oct, 01, 2009
Columbia’s Jung-Chi Liao seeks pathways within proteins using AlloPathFinder, a Simbios tool he co-developed while at Stanford.
from http://biomedicalcomputationreview.org/content/simbios-bringing-biomedical-simulation-your-fingertips
As a Simbios post-doc, Jung-Chi Liao, PhD, sought to understand how a conformational...
Oct, 01, 2009