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

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.

David A. Sivak, John D. Chodera, and Gavin E. Crooks. Phys. Rev. X 3, 011007

Discussion

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Re: worm-like chain torsion

OpenMM Aug 18, 2017
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Re: Density-dependent potential

OpenMM Aug 18, 2017
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Re: Custom (improper) torsion, choice of function and order of atoms

OpenMM Aug 18, 2017

SimTK is maintained through Grant R01 GM107340 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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