RNA

Biocomputational methods complement experimental techniques to expand our understanding of RNA, molecules vital to the normal expression of genes within our bodies.

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News

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OpenSim gets high marks as a multibody system simulator

Simbody: Multibody Physics API Aug 3, 2015
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Macromolecular Simulation Software Workshop featuring OpenMM

OpenMM Jul 15, 2015
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OpenMM 6.1 Available

OpenMM Sep 30, 2014

Publications

P. Eastman, J. Swails, J. D. Chodera, R. T. McGibbon, Y. Zhao, K. A. Beauchamp, L.-P. Wang, A. C. Simmonett, M. P. Harrigan, C. D. Stern, R. P. Wiewiora, B. R. Brooks, and V. S. Pande. "OpenMM 7: Rapid development of high performance algorithms for molecular dynamics." PLOS Comp. Biol. 13(7): e1005659.

Tek, A., Korostelev, A.A. and Flores, S.C. (2015) MMB-GUI: a fast morphing method demonstrates a possible ribosomal tRNA translocation trajectory. Nucleic Acids Res., 10.1093/nar/gkv1457.

Wang, L-P., Martinez, T. J. and Pande, V.S. "Building force fields - an automatic, systematic and reproducible approach", submitted.

Discussion

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Can we have two CustomGBForce running at the same time?

OpenMM Jul 20, 2019
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Re: Simulated tempering

OpenMM Jul 20, 2019
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Re: Maximum simulation time with openmm

OpenMM Jul 20, 2019

SimTK is maintained through Grant R01GM124443 01A1 from the National Institutes of Health (NIH). It was initially developed as part of the Simbios project funded by the NIH as part of the NIH Roadmap for Medical Research, Grant U54 GM072970.

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