Literature DB >> 21847315

Graphics Processing Units and High-Dimensional Optimization.

Hua Zhou1, Kenneth Lange, Marc A Suchard.   

Abstract

This paper discusses the potential of graphics processing units (GPUs) in high-dimensional optimization problems. A single GPU card with hundreds of arithmetic cores can be inserted in a personal computer and dramatically accelerates many statistical algorithms. To exploit these devices fully, optimization algorithms should reduce to multiple parallel tasks, each accessing a limited amount of data. These criteria favor EM and MM algorithms that separate parameters and data. To a lesser extent block relaxation and coordinate descent and ascent also qualify. We demonstrate the utility of GPUs in nonnegative matrix factorization, PET image reconstruction, and multidimensional scaling. Speedups of 100 fold can easily be attained. Over the next decade, GPUs will fundamentally alter the landscape of computational statistics. It is time for more statisticians to get on-board.

Entities:  

Year:  2010        PMID: 21847315      PMCID: PMC3155776          DOI: 10.1214/10-STS336

Source DB:  PubMed          Journal:  Stat Sci        ISSN: 0883-4237            Impact factor:   2.901


  12 in total

1.  Learning the parts of objects by non-negative matrix factorization.

Authors:  D D Lee; H S Seung
Journal:  Nature       Date:  1999-10-21       Impact factor: 49.962

2.  Deterministic annealing EM algorithm.

Authors:  N Ueda; R Nakano
Journal:  Neural Netw       Date:  1998-03

3.  A Poisson model for random multigraphs.

Authors:  John M O Ranola; Sangtae Ahn; Mary Sehl; Desmond J Smith; Kenneth Lange
Journal:  Bioinformatics       Date:  2010-06-16       Impact factor: 6.937

4.  Understanding GPU Programming for Statistical Computation: Studies in Massively Parallel Massive Mixtures.

Authors:  Marc A Suchard; Quanli Wang; Cliburn Chan; Jacob Frelinger; Andrew Cron; Mike West
Journal:  J Comput Graph Stat       Date:  2010-06-01       Impact factor: 2.302

5.  MM Algorithms for Some Discrete Multivariate Distributions.

Authors:  Hua Zhou; Kenneth Lange
Journal:  J Comput Graph Stat       Date:  2010-09-01       Impact factor: 2.302

6.  Many-core algorithms for statistical phylogenetics.

Authors:  Marc A Suchard; Andrew Rambaut
Journal:  Bioinformatics       Date:  2009-04-15       Impact factor: 6.937

7.  EM reconstruction algorithms for emission and transmission tomography.

Authors:  K Lange; R Carson
Journal:  J Comput Assist Tomogr       Date:  1984-04       Impact factor: 1.826

8.  A quasi-Newton acceleration for high-dimensional optimization algorithms.

Authors:  Hua Zhou; David Alexander; Kenneth Lange
Journal:  Stat Comput       Date:  2011-01-04       Impact factor: 2.559

9.  On the utility of graphics cards to perform massively parallel simulation of advanced Monte Carlo methods.

Authors:  Anthony Lee; Christopher Yau; Michael B Giles; Arnaud Doucet; Christopher C Holmes
Journal:  J Comput Graph Stat       Date:  2010-12-01       Impact factor: 2.302

10.  Accelerating epistasis analysis in human genetics with consumer graphics hardware.

Authors:  Nicholas A Sinnott-Armstrong; Casey S Greene; Fabio Cancare; Jason H Moore
Journal:  BMC Res Notes       Date:  2009-07-24
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  12 in total

1.  Mendel-GPU: haplotyping and genotype imputation on graphics processing units.

Authors:  Gary K Chen; Kai Wang; Alex H Stram; Eric M Sobel; Kenneth Lange
Journal:  Bioinformatics       Date:  2012-09-05       Impact factor: 6.937

2.  MM Algorithms for Geometric and Signomial Programming.

Authors:  Kenneth Lange; Hua Zhou
Journal:  Math Program       Date:  2014-02-01       Impact factor: 3.995

3.  Regression Models For Multivariate Count Data.

Authors:  Yiwen Zhang; Hua Zhou; Jin Zhou; Wei Sun
Journal:  J Comput Graph Stat       Date:  2017-02-16       Impact factor: 2.302

4.  GPU-powered Shotgun Stochastic Search for Dirichlet process mixtures of Gaussian Graphical Models.

Authors:  Chiranjit Mukherjee; Abel Rodriguez
Journal:  J Comput Graph Stat       Date:  2016-08-05       Impact factor: 2.302

5.  Massive parallelization of serial inference algorithms for a complex generalized linear model.

Authors:  Marc A Suchard; Shawn E Simpson; Ivan Zorych; Patrick Ryan; David Madigan
Journal:  ACM Trans Model Comput Simul       Date:  2013-01       Impact factor: 1.075

6.  Estimation for general birth-death processes.

Authors:  Forrest W Crawford; Vladimir N Minin; Marc A Suchard
Journal:  J Am Stat Assoc       Date:  2014-04       Impact factor: 5.033

7.  A Brief Survey of Modern Optimization for Statisticians.

Authors:  Kenneth Lange; Eric C Chi; Hua Zhou
Journal:  Int Stat Rev       Date:  2014-04-01       Impact factor: 2.217

8.  GENIE: a software package for gene-gene interaction analysis in genetic association studies using multiple GPU or CPU cores.

Authors:  Satish Chikkagoudar; Kai Wang; Mingyao Li
Journal:  BMC Res Notes       Date:  2011-05-26

9.  Massive parallelization boosts big Bayesian multidimensional scaling.

Authors:  Andrew J Holbrook; Philippe Lemey; Guy Baele; Simon Dellicour; Dirk Brockmann; Andrew Rambaut; Marc A Suchard
Journal:  J Comput Graph Stat       Date:  2020-06-08       Impact factor: 2.302

10.  Scalable Bayesian inference for self-excitatory stochastic processes applied to big American gunfire data.

Authors:  Andrew J Holbrook; Charles E Loeffler; Seth R Flaxman; Marc A Suchard
Journal:  Stat Comput       Date:  2021-01-12       Impact factor: 2.559

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