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Research: Mak Research Group, Chemistry, Univsity of Southern California

Research Home Page of the Chi Mak (C.H. Mak) Group, Department of Chemistry, University of Southern California (USC)

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Research: Mak Research Group, Chemistry, Univsity of Southern California | rna.usc.edu Reviews

https://rna.usc.edu

Research Home Page of the Chi Mak (C.H. Mak) Group, Department of Chemistry, University of Southern California (USC)

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1

Research: Mak Research Group, Chemistry, Univsity of Southern California

http://rna.usc.edu/software.php

University of Southern California. 1 Single-Nucleotide RNA and Ribose Loop Closure Subroutines. Fortran 77 and ANSI C subroutines to reclose single-nucleotide loops and riboses in RNAs or DNAs. CH Mak, "RNA conformational sampling: I. Single-Nucleotide Loop Closure", J. Comput. Chem. Vol 29, p.926-933, 2008. 2 Multi-Nucleotide RNA Loop Closure Subroutines. Fortran 77 and ANSI C subroutines to reclose arbitrary-length multi-nucleotide loops in RNAs or DNAs. 4 Chemical Kinetics Simulation.

2

Research: Mak Research Group, Chemistry, Univsity of Southern California

http://rna.usc.edu/hardware.php

University of Southern California. 12 motherboards, AMD Quad core on each board, 2GB memory per node, one 1600-core ATI GPGPU per board, 4 TB storage. 48 AMD cores, 2GB memory per node, 2 TB storage. 64 AMD cores, 1.5GB memory per node, 2 TB storage. University of Southern California.

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Research: Mak Research Group, Chemistry, Univsity of Southern California

http://rna.usc.edu/teaching.php

University of Southern California. This page is under development. University of Southern California.

4

Mak Research Group, Chemistry, Univsity of Southern California

http://rna.usc.edu/home.php

University of Southern California. Innovative Algorithms for Molecular Simulations. Chemical Theory . Statistical Mechanics . Computing and Simulations. Professor Chi H. Mak. BS (Chem Engn, Berkeley, 1984). PhD (Chemistry, Stanford, 1988). University of Southern California. Los Angeles, California 90089-0482, U.S.A. E-mail: cmak AT usc.edu. Facebook: Mak Group @USC Chemistry. RNA Modeling and Tertiary Structure Prediction. Computer Simulation/Modeling Techniques and Algorithms. Undergradaute Research Sem...

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Research: Mak Research Group, Chemistry, Univsity of Southern California

University of Southern California. 1 Mapping RNA Folding/Unfolding Pathways via Large Loop Motions. RNAs, just like proteins, have to fold into highly specific tertiary structures in order for them to carry out the proper biological functions. Some of these include protein synthesis in the ribosome, the excision of non-coding sequence in mRNAs group I and II introns, and the regulation of gene expression by riboswitches. We have pioneered the development of a new type of Monte Carlo simulations to target...

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