An efficient algorithm for estimating brain covariance networks

PloS One
Marcela I CespedesAlzheimer’s Disease Neuroimaging Initiative

Abstract

Often derived from partial correlations or many pairwise analyses, covariance networks represent the inter-relationships among regions and can reveal important topological structures in brain measures from healthy and pathological subjects. However both approaches are not consistent network estimators and are sensitive to the value of the tuning parameters. Here, we propose a consistent covariance network estimator by maximising the network likelihood (MNL) which is robust to the tuning parameter. We validate the consistency of our algorithm theoretically and via a simulation study, and contrast these results against two well-known approaches: the graphical LASSO (gLASSO) and Pearson pairwise correlations (PPC) over a range of tuning parameters. The MNL algorithm had a specificity equal to and greater than 0.94 for all sample sizes in the simulation study, and the sensitivity was shown to increase as the sample size increased. The gLASSO and PPC demonstrated a specificity-sensitivity trade-off over a range of values of tuning parameters highlighting the discrepancy in the results for misspecified values. Application of the MNL algorithm to the case study data showed a loss of connections between healthy and impaired groups, and...Continue Reading

References

Jan 11, 2000·IEEE Transactions on Medical Imaging·K Van LeemputP Suetens
Feb 6, 2007·PLoS Computational Biology·Sophie Achard, Ed Bullmore
May 4, 2007·Alzheimer's & Dementia : the Journal of the Alzheimer's Association·Susanne G MuellerLaurel Beckett
Oct 16, 2007·NeuroImage·F DuBois BowmanClinton Kilts
Dec 15, 2007·Biostatistics·Jerome FriedmanRobert Tibshirani
May 2, 2008·The Journal of Neuroscience : the Official Journal of the Society for Neuroscience·Yong HeAlan Evans
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
Apr 21, 2009·Neuron·William W SeeleyMichael D Greicius
Aug 4, 2009·Medical Image Analysis·Oscar AcostaUNKNOWN Alzheimer's Disease Neuroimaging Initiative
Jan 19, 2010·NeuroImage·Shuai HuangUNKNOWN Alzheimer's Disease NeuroImaging Initiative
Dec 3, 2010·PLoS Computational Biology·Zhijun YaoUNKNOWN Alzheimer's Disease Neuroimaging Initiative
Jul 4, 2012·Spatial and Spatio-temporal Epidemiology·Duncan Lee
Sep 18, 2012·Schizophrenia Research·Yuanchao ZhangTianzi Jiang
Oct 11, 2012·Biometrika·Jacob Bien, Robert J Tibshirani
Mar 28, 2013·Nature Reviews. Neuroscience·Aaron Alexander-BlochEd Bullmore
Apr 30, 2013·NeuroImage·Alessandra GriffaPatric Hagmann
May 21, 2013·NeuroImage·David C Van EssenUNKNOWN WU-Minn HCP Consortium
Aug 13, 2013·Alzheimer's & Dementia : the Journal of the Alzheimer's Association·Michael W WeinerUNKNOWN Alzheimer's Disease Neuroimaging Initiative
Nov 13, 2013·Neurobiology of Aging·Matthew R BrierBeau M Ances
Mar 14, 2014·Biostatistics·Craig AndersonNema Dean
Nov 9, 2012·Electronic Journal of Statistics·Rahul Mazumder, Trevor Hastie
Jul 15, 2015·The Neuroscientist : a Review Journal Bringing Neurobiology, Neurology and Psychiatry·Sven Bestmann, Julie Duque
Oct 3, 2015·NeuroImage·Richard F BetzelOlaf Sporns
Jan 6, 2016·IEEE Transactions on Pattern Analysis and Machine Intelligence·Luping ZhouDinggang Shen
Feb 28, 2016·Spatial and Spatio-temporal Epidemiology·Craig AndersonNema Dean
Mar 10, 2016·NeuroImage. Clinical·Elda Fischi-GomezPetra S Hüppi
Apr 8, 2016·The Journal of Neuroscience : the Official Journal of the Society for Neuroscience·Karen CaeyenberghsDerek K Jones
Jul 23, 2016·British Journal of Neurosurgery·Michael G HartJohn Suckling
Oct 28, 2016·Nature Neuroscience·Karla L MillerStephen M Smith
Dec 10, 2016·Frontiers in Aging Neuroscience·Aimée GoldstoneAndrew P Bagshaw
Jan 19, 2018·Neuron·Stephen M Smith, Thomas E Nichols

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Software Mentioned

R
R Core Team
glASSO
MNL

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