Literature DB >> 25650911

Divide and conquer, faster: speeding up molecular simulations.

Feilim Mac Gabhann1.   

Abstract

Mesh：

Year:  2015        PMID： 25650911      PMCID： PMC4317550          DOI： 10.1016/j.bpj.2014.12.026

Source DB:  PubMed          Journal:  Biophys J        ISSN： 0006-3495            Impact factor:   4.033


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  6 in total

Review 1.  CHARMM: the biomolecular simulation program.

Authors:  B R Brooks; C L Brooks; A D Mackerell; L Nilsson; R J Petrella; B Roux; Y Won; G Archontis; C Bartels; S Boresch; A Caflisch; L Caves; Q Cui; A R Dinner; M Feig; S Fischer; J Gao; M Hodoscek; W Im; K Kuczera; T Lazaridis; J Ma; V Ovchinnikov; E Paci; R W Pastor; C B Post; J Z Pu; M Schaefer; B Tidor; R M Venable; H L Woodcock; X Wu; W Yang; D M York; M Karplus
Journal:  J Comput Chem       Date:  2009-07-30       Impact factor: 3.376

2.  Increase of plasma VEGF after intravenous administration of bevacizumab is predicted by a pharmacokinetic model.

Authors:  Marianne O Stefanini; Florence T H Wu; Feilim Mac Gabhann; Aleksander S Popel
Journal:  Cancer Res       Date:  2010-11-30       Impact factor: 12.701

3.  Detailed simulations of cell biology with Smoldyn 2.1.

Authors:  Steven S Andrews; Nathan J Addy; Roger Brent; Adam P Arkin
Journal:  PLoS Comput Biol       Date:  2010-03-12       Impact factor: 4.475

4.  FAST MONTE CARLO SIMULATION METHODS FOR BIOLOGICAL REACTION-DIFFUSION SYSTEMS IN SOLUTION AND ON SURFACES.

Authors:  Rex A Kerr; Thomas M Bartol; Boris Kaminsky; Markus Dittrich; Jen-Chien Jack Chang; Scott B Baden; Terrence J Sejnowski; Joel R Stiles
Journal:  SIAM J Sci Comput       Date:  2008-10-13       Impact factor: 2.373

5.  Module-based multiscale simulation of angiogenesis in skeletal muscle.

Authors:  Gang Liu; Amina A Qutub; Prakash Vempati; Feilim Mac Gabhann; Aleksander S Popel
Journal:  Theor Biol Med Model       Date:  2011-04-04       Impact factor: 2.432

6.  ReaDDy--a software for particle-based reaction-diffusion dynamics in crowded cellular environments.

Authors:  Johannes Schöneberg; Frank Noé
Journal:  PLoS One       Date:  2013-09-11       Impact factor: 3.240
  6 in total

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