A hybrid CPU-GPU accelerated framework for fast mapping of high-resolution human brain connectome

PloS One
Yu WangYong He

Abstract

Recently, a combination of non-invasive neuroimaging techniques and graph theoretical approaches has provided a unique opportunity for understanding the patterns of the structural and functional connectivity of the human brain (referred to as the human brain connectome). Currently, there is a very large amount of brain imaging data that have been collected, and there are very high requirements for the computational capabilities that are used in high-resolution connectome research. In this paper, we propose a hybrid CPU-GPU framework to accelerate the computation of the human brain connectome. We applied this framework to a publicly available resting-state functional MRI dataset from 197 participants. For each subject, we first computed Pearson's Correlation coefficient between any pairs of the time series of gray-matter voxels, and then we constructed unweighted undirected brain networks with 58 k nodes and a sparsity range from 0.02% to 0.17%. Next, graphic properties of the functional brain networks were quantified, analyzed and compared with those of 15 corresponding random networks. With our proposed accelerating framework, the above process for each network cost 80∼150 minutes, depending on the network sparsity. Further an...Continue Reading

References

Feb 24, 2001·Proceedings of the National Academy of Sciences of the United States of America·M E RaichleG L Shulman
May 4, 2002·Science·Sergei Maslov, Kim Sneppen
Oct 31, 2003·Magnetic Resonance in Medicine : Official Journal of the Society of Magnetic Resonance in Medicine·T E J BehrensS M Smith
Nov 19, 2003·Neural Networks : the Official Journal of the International Neural Network Society·Rolf Kötter, Klaas E Stephan
Jul 13, 2004·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·M E J Newman
Feb 9, 2005·Physical Review Letters·Victor M EguíluzA Vania Apkarian
Oct 5, 2005·PLoS Computational Biology·Olaf SpornsRolf Kötter
Jan 10, 2006·The Journal of Neuroscience : the Official Journal of the Society for Neuroscience·Sophie AchardEd Bullmore
Oct 10, 2006·Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics·M E J Newman
Feb 6, 2007·PLoS Computational Biology·Sophie Achard, Ed Bullmore
Jul 6, 2007·PloS One·Patric HagmannJean-Philippe Thiran
Aug 23, 2007·BMC Cell Biology·Guillermo A CecchiDante R Chialvo
Feb 27, 2008·Brain : a Journal of Neurology·Yong LiuTianzi Jiang
Mar 7, 2008·Proceedings of the National Academy of Sciences of the United States of America·Damien A FairBradley L Schlaggar
May 2, 2008·The Journal of Neuroscience : the Official Journal of the Society for Neuroscience·Yong HeAlan Evans
Jun 28, 2008·PLoS Computational Biology·Kaustubh SupekarMichael D Greicius
Jul 4, 2008·PLoS Biology·Patric HagmannOlaf Sporns
Sep 12, 2008·The Journal of Neuroscience : the Official Journal of the Society for Neuroscience·Danielle S BassettAndreas Meyer-Lindenberg
Feb 5, 2009·Nature Reviews. Neuroscience·Ed Bullmore, Olaf Sporns
Feb 13, 2009·The Journal of Neuroscience : the Official Journal of the Society for Neuroscience·Randy L BucknerKeith A Johnson
May 5, 2009·PLoS Computational Biology·Damien A FairSteven E Petersen
Jun 12, 2009·The Journal of Neuroscience : the Official Journal of the Society for Neuroscience·Martijn P van den HeuvelHilleke E Hulshoff Pol
Jul 2, 2009·Chaos·M ValenciaM Chavez
Oct 13, 2009·NeuroImage·Mikail Rubinov, Olaf Sporns
Nov 12, 2009·Proceedings of the National Academy of Sciences of the United States of America·Daniel S MarguliesMichael Petrides
Dec 29, 2009·NeuroImage·Andrew ZaleskyEdward T Bullmore
May 12, 2010·Proceedings of the National Academy of Sciences of the United States of America·Dardo Tomasi, Nora D Volkow
Jun 26, 2010·Frontiers in Systems Neuroscience·Yan Chao-Gan, Zang Yu-Feng
Jun 29, 2010·Current Opinion in Neurology·Yong He, Alan Evans
Jul 14, 2010·Neuron·Steven M NelsonSteven E Petersen
Jul 20, 2010·Clinical Neurophysiology : Official Journal of the International Federation of Clinical Neurophysiology·Chengyu ZhuShanbao Tong
Sep 11, 2010·Science·Nico U F DosenbachBradley L Schlaggar
Oct 20, 2010·Proceedings of the National Academy of Sciences of the United States of America·P HagmannP E Grant
Nov 3, 2010·Biological Psychiatry·Andrew ZaleskyChristos Pantelis
Dec 17, 2010·The Journal of Neuroscience : the Official Journal of the Society for Neuroscience·Chun-Yi LoChing-Po Lin

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Citations

Apr 9, 2017·Neuroscience and Biobehavioral Reviews·Xuhong LiaoYong He
Feb 25, 2017·NeuroImage·Mingrui Xia, Yong He
Dec 15, 2016·Frontiers in Neuroinformatics·Kristian LoeweChristian Borgelt
Aug 24, 2017··Muaaz Gul AwanTaban Eslami

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Methods Mentioned

BETA
imaging techniques
chip

Software Mentioned

CUDA
CUDA Toolkit
GPU
AMD ACML
BrainNet Viewer
Intel MKL

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