Parallel Mutual Information Based Construction of Genome-Scale Networks on the Intel®Xeon Phi™ Coprocessor
暂无分享,去创建一个
[1] D. Floreano,et al. Revealing strengths and weaknesses of methods for gene network inference , 2010, Proceedings of the National Academy of Sciences.
[2] Nick Barnes,et al. Speeding up Mutual Information Computation Using NVIDIA CUDA Hardware , 2007, 9th Biennial Conference of the Australian Pattern Recognition Society on Digital Image Computing Techniques and Applications (DICTA 2007).
[3] Moon,et al. Estimation of mutual information using kernel density estimators. , 1995, Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics.
[4] Weiguo Liu,et al. Parallel mutual information estimation for inferring gene regulatory networks on GPUs , 2011, BMC Research Notes.
[5] K. Strimmer,et al. Statistical Applications in Genetics and Molecular Biology A Shrinkage Approach to Large-Scale Covariance Matrix Estimation and Implications for Functional Genomics , 2011 .
[6] A. Kraskov,et al. Estimating mutual information. , 2003, Physical review. E, Statistical, nonlinear, and soft matter physics.
[7] Thomas M. Cover,et al. Elements of information theory (2. ed.) , 2006 .
[8] David Correa Martins,et al. Accelerating gene regulatory networks inference through GPU/CUDA programming , 2012, 2012 IEEE 2nd International Conference on Computational Advances in Bio and medical Sciences (ICCABS).
[9] Takuji Nishimura,et al. Mersenne twister: a 623-dimensionally equidistributed uniform pseudo-random number generator , 1998, TOMC.
[10] D. di Bernardo,et al. How to infer gene networks from expression profiles , 2007, Molecular systems biology.
[11] Srinivas Aluru,et al. Parallel Bayesian network structure learning with application to gene networks , 2012, 2012 International Conference for High Performance Computing, Networking, Storage and Analysis.
[12] G. Marsaglia. Random numbers fall mainly in the planes. , 1968, Proceedings of the National Academy of Sciences of the United States of America.
[13] Carlos A. Coello Coello,et al. A GPU-Based Implementation of Differential Evolution for Solving the Gene Regulatory Network Model Inference Problem , 2012 .
[14] Srinivas Aluru,et al. Parallel Information-Theory-Based Construction of Genome-Wide Gene Regulatory Networks , 2010, IEEE Transactions on Parallel and Distributed Systems.
[15] M. Aluru,et al. Reverse engineering and analysis of large genome-scale gene networks , 2012, Nucleic acids research.
[16] J. Collins,et al. Large-Scale Mapping and Validation of Escherichia coli Transcriptional Regulation from a Compendium of Expression Profiles , 2007, PLoS biology.
[17] A. Maritan,et al. Using the principle of entropy maximization to infer genetic interaction networks from gene expression patterns , 2006, Proceedings of the National Academy of Sciences.
[18] Qingqiu Gong,et al. An Arabidopsis gene network based on the graphical Gaussian model. , 2007, Genome research.
[19] Jesper Tegnér,et al. Reverse engineering gene networks using singular value decomposition and robust regression , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[20] P. Bühlmann,et al. Sparse graphical Gaussian modeling of the isoprenoid gene network in Arabidopsis thaliana , 2004, Genome Biology.
[21] Michal Linial,et al. Using Bayesian Networks to Analyze Expression Data , 2000, J. Comput. Biol..
[22] Gérard G. Medioni,et al. Mutual information computation and maximization using GPU , 2008, 2008 IEEE Computer Society Conference on Computer Vision and Pattern Recognition Workshops.
[23] Masao Nagasaki,et al. Estimating Genome-Wide Gene Networks Using Nonparametric Bayesian Network Models on Massively Parallel Computers , 2011, IEEE/ACM Transactions on Computational Biology and Bioinformatics.
[24] R. Spielman,et al. expression reveals gene interactions and functions Coexpression network based on natural variation in human gene Material , 2009 .
[25] V. Anne Smith,et al. Using Bayesian Network Inference Algorithms to Recover Molecular Genetic Regulatory Networks , 2002 .
[26] Jim Jeffers. Intel® Xeon Phi™ Coprocessors , 2013 .
[27] Julie A. Dickerson,et al. Arabidopsis gene co-expression network and its functional modules , 2009, BMC Bioinformatics.
[28] Thomas M. Cover,et al. Elements of Information Theory , 2005 .
[29] Adam A. Margolin,et al. Reverse engineering of regulatory networks in human B cells , 2005, Nature Genetics.
[30] Carsten O. Daub,et al. Estimating mutual information using B-spline functions – an improved similarity measure for analysing gene expression data , 2004, BMC Bioinformatics.