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3 projects in result set.
Toward virtual biomedical experiments
- Envision a biomedical R&D landscape in which researchers plan detailed wet-lab experiments and execute them in a virtual laboratory—all before putting on their lab coat. They choose virtual reagents, lab equipment, and specimens; they implement virtual protocols and take virtual measurements using virtual instrumentation. They use the results of virtual experiments to design new or refocused wet-lab experiments, which they then conduct in a physical laboratory.
This is the virtual biomedical experiment (VBE) vision. A virtual biomedical experiment is a simulation of a wet-lab or clinical experiment. When developing a VBE, the modeler aspires to mimic particular relevant aspects of the referent experiment—from hypothesis formation to data analysis, and key concepts in between—not just features of the underlying biological processes. | |
Activity Percentile: 0.00 Registered: 2016-04-27 19:44 |
C++ and Python code, distributed computing and OpenMM interfaces for simulations
- please cite: "Interplay of Protein and DNA Structure Revealed in Simulations of the lac Operon" (PLOS One 2013)
for any code related to protein-DNA modeling and
"Free Energy Monte Carlo Simulations on a Distributed Network" (Lecture Notes in Computer Science Journal for PARA 2010)
http://link.springer.com/chapter/10.1007%2F978-3-642-28145-7_1
for parallel client-server code, users of additional code should cite this web site. Code is provided as-is with no warranty and examples are provided to illustrate the usage of these modeling techniques with some sample systems. Code is the intellectual property of Luke Czapla, developer and biophysicist. Examples are provided in C/C++ and Python. | |
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Activity Percentile: 0.00 Registered: 2014-02-01 22:32 |
Optimal Control Workshop
- This project provides files distributed at the NSF-funded Optimal Control Workshop held on July 9, 2015 at the University of Edinburgh as part of the XV International Symposium on Computer Simulation in Biomechanics. The workshop material was organized into three sections: 1) Motivational material, 2) Technical material, and 3) Tutorial material. Slides from each section, along with all tutorial material (requires a license of GPOPS-II optimal control software), are included. | |
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Activity Percentile: 0.00 Registered: 2015-08-01 16:35 |