Literature DB >> 23066431

Computational opportunities for remote collaboration and capacity building afforded by Web 2.0 and cloud computing.

Willy Wriggers1, Wilma K Olson, Cristobal G Dos Remedios.   

Abstract

In this paper, we state our aims and aspirations for building a global network of likeminded people interested in developing and encouraging students in the field of computational biophysics (CB). Global capacity building efforts have uncovered local computational talent in virtually every community regardless of where the students reside. Our vision is to discover and encourage these aspiring investigators by suggesting ways that they and other "garage scientists" can participate in new science even if they have no access to sophisticated research infrastructure. We argue that participatory computing in the "cloud" is particularly suitable for CB and available to any budding computational biophysicist if he or she is provided with open-minded mentors who have the necessary skills and generosity. We recognize that there are barriers to the development of such remote collaborations, and we discuss possible pathways to overcome these barriers. We point out that this Special Issue of Biophysical Reviews provides a much-needed forum for the development of several specific applications of CB.

Entities:  

Year:  2012        PMID: 23066431      PMCID: PMC3467109          DOI: 10.1007/s12551-012-0085-8

Source DB:  PubMed          Journal:  Biophys Rev        ISSN: 1867-2450


  13 in total

1.  3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures.

Authors:  Xiang-Jun Lu; Wilma K Olson
Journal:  Nucleic Acids Res       Date:  2003-09-01       Impact factor: 16.971

2.  Garage biotech: Life hackers.

Authors:  Heidi Ledford
Journal:  Nature       Date:  2010-10-07       Impact factor: 49.962

3.  Scalable molecular dynamics with NAMD.

Authors:  James C Phillips; Rosemary Braun; Wei Wang; James Gumbart; Emad Tajkhorshid; Elizabeth Villa; Christophe Chipot; Robert D Skeel; Laxmikant Kalé; Klaus Schulten
Journal:  J Comput Chem       Date:  2005-12       Impact factor: 3.376

4.  3DNA: a versatile, integrated software system for the analysis, rebuilding and visualization of three-dimensional nucleic-acid structures.

Authors:  Xiang-Jun Lu; Wilma K Olson
Journal:  Nat Protoc       Date:  2008       Impact factor: 13.491

5.  Quantum mechanical binding free energy calculation for phosphopeptide inhibitors of the Lck SH2 domain.

Authors:  Victor M Anisimov; Claudio N Cavasotto
Journal:  J Comput Chem       Date:  2011-04-11       Impact factor: 3.376

6.  Automated tracing of filaments in 3D electron tomography reconstructions using Sculptor and Situs.

Authors:  Mirabela Rusu; Zbigniew Starosolski; Manuel Wahle; Alexander Rigort; Willy Wriggers
Journal:  J Struct Biol       Date:  2012-03-13       Impact factor: 2.867

7.  Evolutionary bidirectional expansion for the tracing of alpha helices in cryo-electron microscopy reconstructions.

Authors:  Mirabela Rusu; Willy Wriggers
Journal:  J Struct Biol       Date:  2011-12-06       Impact factor: 2.867

8.  Crystal structure of a monomeric retroviral protease solved by protein folding game players.

Authors:  Firas Khatib; Frank DiMaio; Seth Cooper; Maciej Kazmierczyk; Miroslaw Gilski; Szymon Krzywda; Helena Zabranska; Iva Pichova; James Thompson; Zoran Popović; Mariusz Jaskolski; David Baker
Journal:  Nat Struct Mol Biol       Date:  2011-09-18       Impact factor: 15.369

9.  The zinc dyshomeostasis hypothesis of Alzheimer's disease.

Authors:  Travis J A Craddock; Jack A Tuszynski; Deepak Chopra; Noel Casey; Lee E Goldstein; Stuart R Hameroff; Rudolph E Tanzi
Journal:  PLoS One       Date:  2012-03-23       Impact factor: 3.240

10.  ISMB/ECCB 2009 Stockholm.

Authors:  Marie-France Sagot; B J Morrison McKay; Gene Myers
Journal:  Bioinformatics       Date:  2009-05-14       Impact factor: 6.937

View more
  1 in total

1.  The evolution of Biophysical Reviews.

Authors:  Cristobal G Dos Remedios
Journal:  Biophys Rev       Date:  2016-01-15
  1 in total

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