How Simbios' state-of-the-art software tools are contributing to high-impact biomedical research
Simbios began with a simple idea: that physics-based simulation of biological structures at all scales could benefit from a
unified tool-building effort.
At the same time, the thinking went,...
Oct, 01, 2009
Notre Dame’s Jesus Izaguirre collaborates with Simbios to increase the time scales of protein folding simulations with OpenMM. Why team up with Simbios? Because “they are working on exciting problems and have good people,” he says.
from http://biomedicalcomputationreview.org/content/simbios-bringing-biomedical-simulation-your-fingertips
Jesus Izaguirre, PhD, associate professor of computer science and engineering at the...
Oct, 01, 2009
From hardened software to scientific productivity, the NCBCs have changed the landscape for biomedical computing. What will happen when their funding expires?
It has been eight years since the National Institutes of Health (NIH) funded the first National Centers for Biomedical Computing (NCBCs). With two or three years remaining in the program (...
Oct, 19, 2012
Simbios broadened University of Virginia’s Silvia Blemker’s horizons; and OpenSim is helping her understand hamstring injuries in sprinters.
from http://biomedicalcomputationreview.org/content/simbios-bringing-biomedical-simulation-your-fingertips
Silvia Blemker, PhD, has deep roots in Simbios. As a Stanford graduate student, she...
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
Erik Lindahl of Stockholm University uses OpenMM to speed up molecular simulations of membrane proteins and takes inspiration from Simbios’ professional approach to software development as he continues developing and maintaining GROMACS.
from http://biomedicalcomputationreview.org/content/simbios-bringing-biomedical-simulation-your-fingertips
Simbios provides two key benefits to Erik Lindahl, PhD, associate professor of...
Oct, 01, 2009
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...
Jul, 01, 2008
The Principal Investigators weigh in
Ever since the National Institutes of Health (NIH) began funding the National Centers for Biomedical Computing (NCBCs) just over seven years ago, these powerhouses have been plugging away, building...
Feb, 29, 2012
Alain Laederach of the Wadsworth Center counts on Simtk.org as a long term software and data repository and says Simbios’ dissemination efforts will pay off.
from http://biomedicalcomputationreview.org/content/simbios-bringing-biomedical-simulation-your-fingertips
Alain Laederach, PhD, a research scientist at the Wadsworth Center and an assistant...
Oct, 01, 2009
Postdocs get a glance at the entire field and their first inside view of NIH grant-making
If he were a graduate student now, Francis Collins would be studying computational biology. That’s what the Director of the National Institutes of Health (NIH) told a rapt audience at the...
Feb, 19, 2013