title: BSMac: a MATLAB toolbox implementing a Bayesian spatial model for brain activation and connectivity.
abstract: We present a statistical and graphical visualization MATLAB toolbox for the analysis of functional magnetic resonance imaging (fMRI) data, called the Bayesian Spatial Model for activation and connectivity (BSMac). BSMac simultaneously performs whole-brain activation analyses at the voxel and region of interest (ROI) levels as well as task-related functional connectivity (FC) analyses using a flexible Bayesian modeling framework (Bowman et al., 2008). BSMac allows for inputting data in either Analyze or Nifti file formats. The user provides information pertaining to subgroup memberships, scanning sessions, and experimental tasks (stimuli), from which the design matrix is constructed. BSMac then performs parameter estimation based on Markov Chain Monte Carlo (MCMC) methods and generates plots for activation and FC, such as interactive 2D maps of voxel and region-level task-related changes in neural activity and animated 3D graphics of the FC results. The toolbox can be downloaded from http://www.sph.emory.edu/bios/CBIS/. We illustrate the BSMac toolbox through an application to an fMRI study of working memory in patients with schizophrenia.
authors.affiliation: Department of Biostatistics and Bioinformatics, The Rollins School of Public Health, Emory University, Atlanta, GA 30322, United States. Electronic address: l.zhang@emory.edu.
authors.forename: Lijun
authors.initials: L
authors.lastname: Zhang
authors.affiliation: Center for Comprehensive Informatics, Emory University, Atlanta, GA 30322, United States.
authors.forename: Sanjay
authors.initials: S
authors.lastname: Agravat
authors.affiliation: Department of Biostatistics and Bioinformatics, The Rollins School of Public Health, Emory University, Atlanta, GA 30322, United States.
authors.forename: Gordana
authors.initials: G
authors.lastname: Derado
authors.affiliation: Department of Biostatistics and Bioinformatics, The Rollins School of Public Health, Emory University, Atlanta, GA 30322, United States.
authors.forename: Shuo
authors.initials: S
authors.lastname: Chen
authors.affiliation: Department of Psychiatry and Behavioral Sciences, School of Medicine, Emory University, Atlanta, GA 30322, United States.
authors.forename: Belinda J
authors.initials: BJ
authors.lastname: McIntosh
authors.affiliation: Department of Biostatistics and Bioinformatics, The Rollins School of Public Health, Emory University, Atlanta, GA 30322, United States.
authors.forename: F DuBois
authors.initials: FD
authors.lastname: Bowman
mesh_terms: D000465:Algorithms; D000818:Animals; D001499:Bayes Theorem; D001921:Brain / Q000033:anatomy & histology / Q000502:physiology*; D003196:Computer Graphics; D003198:Computer Simulation; D006801:Humans; D021621:Imaging, Three-Dimensional / Q000379:methods; D008279:Magnetic Resonance Imaging / Q000379:methods*; D008953:Models, Anatomic; D008959:Models, Neurological; D009415:Nerve Net / Q000033:anatomy & histology / Q000502:physiology; D009434:Neural Pathways / Q000033:anatomy & histology / Q000502:physiology; D012984:Software; D012985:Software Design; D014584:User-Computer Interface
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