The Potential Of Grid Computing In Three-Dimensional Electron Microscopy

This article describes a potential application of grid computing in structural biology. Three-dimensional electron microscopy allows the investigation of biological structures over a wide range of sizes, from cells to single macromolecules. Knowledge of the structure is critical to understanding the function of biological specimens. However, high resolution structure determination is computationally intensive. This contribution analyzes the potential benefits of grid computing in this field, and draws the conclusion that there are excellent opportunities to take advantage of computational grids.

[1]  Ian T. Foster,et al.  MPICH-G2: A Grid-enabled implementation of the Message Passing Interface , 2002, J. Parallel Distributed Comput..

[2]  Francine Berman,et al.  Applying scheduling and tuning to on-line parallel tomography , 2002 .

[3]  Inmaculada García,et al.  High-performance electron tomography of complex biological specimens. , 2002, Journal of structural biology.

[4]  Ian T. Foster,et al.  Grid Services for Distributed System Integration , 2002, Computer.

[5]  Joachim Frank,et al.  Electron Tomography , 1992, Springer US.

[6]  G A Perkins,et al.  Electron tomography of large, multicomponent biological structures. , 1997, Journal of structural biology.

[7]  Inmaculada García,et al.  Three-dimensional reconstruction of cellular structures by electron microscope tomography and parallel computing , 2004, J. Parallel Distributed Comput..

[8]  Wolfgang Baumeister,et al.  Electron tomography: towards visualizing the molecular organization of the cytoplasm. , 2002, Current opinion in structural biology.

[9]  David Lee,et al.  The Telescience Portal for advanced tomography applications , 2003, J. Parallel Distributed Comput..

[10]  J M Carazo,et al.  3D reconstruction in electron microscopy using ART with smooth spherically symmetric volume elements (blobs). , 1998, Ultramicroscopy.

[11]  Ian T. Foster,et al.  Globus: a Metacomputing Infrastructure Toolkit , 1997, Int. J. High Perform. Comput. Appl..

[12]  L. Smarr,et al.  Metacomputing : Siggraph'92 Showcase , 1992 .

[13]  T. Earnest,et al.  From words to literature in structural proteomics , 2003, Nature.

[14]  Gabor T. Herman,et al.  Global Optimization by Parallel Constrained Biased Random Search , 1996 .

[15]  W. Baumeister,et al.  Macromolecular electron microscopy in the era of structural genomics. , 2000, Trends in biochemical sciences.

[16]  W. Baumeister,et al.  Macromolecular Architecture in Eukaryotic Cells Visualized by Cryoelectron Tomography , 2002, Science.

[17]  J. Frank.  Single-particle imaging of macromolecules by cryo-electron microscopy. , 2002, Annual review of biophysics and biomolecular structure.

[18]  Ian T. Foster,et al.  The Globus project: a status report , 1999, Future Gener. Comput. Syst..