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 Research Home  >> Blue Gene

Blue Gene Project Overview
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    IBM Research Blue Gene Project Page


    About IBM's Blue Gene Research Project

    Blue Gene is an IBM Research project dedicated to exploring the frontiers in supercomputing: in computer architecture, in the software required to program and control massively parallel systems, and in the use of computation to advance our understanding of important biological processes such as protein folding.

    The full Blue Gene/L machine is being built with the Department of Energy's NNSA/Lawrence Livermore National Laboratory in California, and will have a peak speed of 360 Teraflops. Blue Gene/L occupies the #1 position in the TOP500 supercomputer list announced in November 2005 and IBM now offers a Blue Gene Solution. IBM and its collaborators are currently exploring a growing list of applications including hydrodynamics, quantum chemistry, molecular dynamics, climate modeling and financial modeling.




    Photos of Blue Gene/L available at this link


    Presentations, Preprints, and Publications

    Blue Matter on Blue Gene/L: massively parallel computation for biomolecular simulation; Proceedings of the 3rd IEEE/ACM/IFIP international conference on Hardware/software codesign and system synthesis 2005; Jersey City, NJ, USA; September 19 - 21, 2005, pp 207 - 212

    Performance Measurements of the 3D FFT on the Blue Gene/L Supercomputer; Lecture Notes in Computer Science, Volume 3648, Aug 2005, pp 795 - 803

    Early Experience with Scientific Applications on the Blue Gene/L Supercomputer; Lecture Notes in Computer Science, Volume 3648, Aug 2005, pp 560 - 570

    Blue Matter: Strong Scaling of Molecular Dynamics on Blue Gene/L; IBM Research Cyberdigest

    Molecular dynamics investigation of dynamical properties of phosphatidylethanolamine lipid bilayers; The Journal of Chemical Physics 2005; 122(24) , 244715

    Molecular dynamics investigation of the structural properties of phosphatidylethanolamine lipid bilayers; The Journal of Chemical Physics 2005; 122(24) , 244714

    IBM Journal of Research and Development, Vol. 49, No. 2/3, 2005; Special Issue on Blue Gene Supplementary Material

    Role of Cholesterol and Polyunsaturated Chains in Lipid-Protein Interactions: Molecular Dynamics Simulation of Rhodopsin in a Realistic Membrane Environment; Journal of the American Chemical Society 2005; 127(13) pp 4576 - 4577

    Molecular-Level Organization of Saturated and Polyunsaturated Fatty Acids in a Phosphatidylcholine Bilayer Containing Cholesterol; Biochemistry 43(49); 2004; 15318-15328

    Describing Protein Folding Kinetics by Molecular Dynamics Simulations. 1. Theory; The Journal of Physical Chemistry B; 108(21); 2004; 6571-6581

    Describing Protein Folding Kinetics by Molecular Dynamics Simulations. 2. Example Applications to Alanine Dipeptide and a beta-Hairpin Peptide; The Journal of Physical Chemistry B; 108(21); 2004; 6582-6594

    Agenda and Presentations for Blue Gene Briefing Day--February 6, 2004

    Design and Analysis of the BlueGene/L Torus Interconnection Network

    A Volumetric FFT for Blue Gene/L, to appear in the Proceedings of HiPC2003

    Blue Matter, An Application Framework for Molecular Simulation on Blue Gene, Journal of Parallel and Distributed Computing Volume 63, Issues 7-8 July-August 2003 , Pages 759-773

    Understanding folding and design: Replica-exchange simulations of "Trp-cage" miniproteins, Proc. Natl. Acad. Sci. USA, Vol. 100, Issue 13, June 24, 2003, pp. 7587-7592

    An overview of the BlueGene/L supercomputer, Supercomputing 2002 Technical Papers, November 2002

    Can a continuum solvent model reproduce the free energy landscape of a beta-hairpin folding in water?, Proc. Natl. Acad. Sci. USA, Vol. 99, Issue 20, October 1, 2002, pp. 12777-12782

    The free energy landscape for beta-hairpin folding in explicit water, Proc. Natl. Acad. Sci. USA, Vol. 98, Issue 26, December 18, 2001, pp. 14931-14936

    Blue Gene Project Update

    Efficient multiple time step method for use with Ewald and particle mesh Ewald for large biomolecular systems, The Journal of Chemical Physics, Volume 115, Issue 5, 2001, pp. 2348-2358

    Blue Gene: A vision for protein science using a petaflop supercomputer, IBM Systems Journal, Volume 40, Number 2, 2001, p. 310

    Industry Links
    Unraveling the Mystery of Protein Folding
    Physicists Take on Challenge Of Showing How Proteins Fold, The Scientist
    The Bridge from Genes to Proteins


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