A Comparison of CPU and OpenCL Parallelization Methods for Correlation and Graph Layout Algorithms used in the Network Analysis of High Dimensional Data

[1]  Thomas Ertl,et al.  GPU-powered tools boost molecular visualization , 2011, Briefings Bioinform..

[2]  Chris S. Haley,et al.  EpiGPU: exhaustive pairwise epistasis scans parallelized on consumer level graphics cards , 2011, Bioinform..

[3]  John Shalf,et al.  The new landscape of parallel computer architecture , 2007 .

[4]  S. Batalov,et al.  A gene atlas of the mouse and human protein-encoding transcriptomes. , 2004, Proceedings of the National Academy of Sciences of the United States of America.

[5]  Lorenzo Dematté,et al.  GPU computing for systems biology , 2010, Briefings Bioinform..

[6]  Brett A. McKinney,et al.  Real-world comparison of CPU and GPU implementations of SNPrank: a network analysis tool for GWAS , 2011, Bioinform..

[7]  D. Geer,et al.  Chip makers turn to multicore processors , 2005, Computer.

[8]  Radek Erban,et al.  STOCHSIMGPU: parallel stochastic simulation for the Systems Biology Toolbox 2 for MATLAB , 2011, Bioinform..

[9]  Michael P. H. Stumpf,et al.  GPU accelerated biochemical network simulation , 2011, Bioinform..

[10]  Can Yang,et al.  GBOOST: a GPU-based tool for detecting gene-gene interactions in genome-wide case control studies , 2011, Bioinform..

[11]  Edward M. Reingold,et al.  Graph drawing by force‐directed placement , 1991, Softw. Pract. Exp..

[12]  Bertil Schmidt,et al.  Manycore High-Performance Computing in Bioinformatics , 2011 .

[13]  Gang Wang,et al.  MrBayes on a Graphics Processing Unit , 2011, Bioinform..

[14]  Jens Stoye,et al.  Exact and complete short-read alignment to microbial genomes using Graphics Processing Unit programming , 2011, Bioinform..

[15]  Yongchao Liu,et al.  DecGPU: distributed error correction on massively parallel graphics processing units using CUDA and MPI , 2011, BMC Bioinformatics.

[16]  B. Ganter,et al.  Emerging applications of network and pathway analysis in drug discovery and development. , 2008, Current opinion in drug discovery & development.