http://pnl.bwh.harvard.edu http://synapse.hitchcock.org Core 3.1 Activities Harvard - Psychiatry Neuroimaging Laboratory and Dartmouth - Brain Imaging Laboratory http://pnl.bwh.harvard.edu http://synapse.hitchcock.org

Update Retrospective and prospective data IRB Progress in adapting NA-MIC kit Issues with the NA-MIC kit Identification of tractable problems

Overview - Harvard Core 1 and Core 3.1 Activities

Core 1 and Core 3.1 Activities University of North Carolina Georgia Tech Utah MIT

Core 1 and Core 3.1 - UNC Shape analysis of caudate. Automatic segmentation of corpus callosum based on diffusion fiber tracking model. ITK SNAP: Level set semiautomatic segmentation tool. Statistical analysis of DTI measures along fiber tracts. Participants: UNC: Isabelle Corouge, Martin Styner, Guido Gerig PNL: Sylvain Bouix, Marek Kubicki, James Levitt, Marc Niethammer, Mark Dreusicke, Adam Cohen, Doug Markant, Martha Shenton

Shape Analysis of Caudate (raw p-values, right) Shape Analysis of Caudate (raw p-values, right) (Schizotypal Personality Disorder) Medial Males UNC Results Females Harvard Results Lateral (p=0.018) (p=0.0027)

Core 1 and Core 3.1 – GTech Semiautomatic segmentation and parcellation of basal ganglia/striatum. Participants: GTech: Ramsey Al-Hakim, Delphine Nain, Allen Tannenbaum PNL: Sylvain Bouix, James Levitt, Marc Niethammer, Laura Rosow, Marek Kubicki, Martha Shenton

Rule Based Segmentation of the Striatum in Slicer Post Putamen Pre Caudate Post Caudate Nucleus Accumbens Pre Putamen Anterior/Superior View of Delineated Striatum Automatically marked label (blue lines input by user to designate superior/dorsal point on putamen) [Ramsey Al-Hakim (GaTech), James Levitt (PNL)]

Core 1 and Core 3.1 - Utah New anisotropic measures for white matter diffusion. Participants: UTAH: Tom Fletcher, Ross Whitaker PNL: Sylvain Bouix, Marek Kubicki, Martha Shenton

EXAMPLES HERE OF NEW MEASURES-UTAH? ???? PUT IN DATA HERE FOR UTAH – or SKIP ????

Core 1 and Core 3.1 - MIT Diffusion measures along cingulum bundle fiber tracts. Clustering of specific fiber tracts based on location & regions they connect. Atlas of human brain white matter fiber bundles using automatic population based clustering. FA/Trace measures of corpus callosum and anterior commissure. Brain tissue segmentation and subparcellation of brain structures. Participants: MIT/LMI: Lauren O’Donnell, Kilian Pohl, Scott Hoge, Raul San Jose, CF Westin, Sandy Wells, Eric Grimson PNL: Sylvain Bouix, Marek Kubicki, Motiaki Nakamura, Marc Niethammer, Mark Dreusicke, Min-Seong Koo, Doug Markant, Martha Shenton

Fiber Clustering: Application to NAMIC Data Clustering algorithm: Takes traced fibers (left), extracts features from these fibers (middle), and produces a segmentation based on the similarity (right). Left and Right Fornix Uncinate Fasciculus and Inferior Occipito-Frontal Fasciculus Splenium of the Corpus Callosum [O’Donnell L, Kubicki M, Shenton, ME, Dreusicke M, Grimson E, Westin, CF: A Method for Clustering White Matter Fiber Tracts. Am J Neuroradiol (In Press)].

Population Clustering Automatic generation of white matter fiber bundles based on shape similarity across subjects. Cingulum Bundles Uncinate Fasciculi Corpus Callosum [O’Donnell, et al., MIT]

Core 2 and Core 3.1 Activities Bug reporting and tracking. Prototype testing. Feature requests. Backward compatibility testing. Participants: Core 2/LMI: Nichole Aucoin, Katie Hayes, Alex Yarmakovich, Raul San Jose, CF Westin, Steve Pieper PNL: Sylvain Bouix, Marc Niethammer, Katharina Quintus

Core 5 and Core 3.1 Activities Contributed to training material. Participated in training sessions both as trainer and trainee. Hosted one-on-one advanced training sessions. Participants: Core 5: Sonia Pujol, Randy Gollub PNL: Sylvain Bouix, Laura Rosow, Adam Cohen, Erin Connor, Kathleen Long

Workshop Wish List. Identification of Tractable Problems.

Publications Biomedical and Clinical Applications Nakamura M, McCarley RW, Kubicki M, Dickey CC, Niznikiewicz MA, Voglmaier MM, Seidman LJ, Maier SE, Westin CF, Kikinis R, Shenton ME. Fronto-temporal disconnectivity in schizotypal personality disorder: a diffusion tensor imaging study. Biol Psychiatry. 2005 Sep 15;58(6):468-78. Koo MS, Levitt JJ, McCarley RW, Seidman LJ, Dickey CC, Niznikiewicz MA, Voglmaier MM, Zamani P, Long KL, Kim SS, Shenton ME. Reduction of caudate volume in neuroleptic-naive female subjects with schizotypal personality disorder. Biol Psychiatry (In Press). Kuroki N, Kubicki M, Nestor PG, Salisbury DF, Park HJ, Levitt JJ, Woolston S, Frumin M, Niznikiewicz M, Westin CF, Maier SE, McCarley RW, Shenton ME. Fornix integrity and hippocampal volume in male schizophrenic patients. Biol Psychiatry (In Press). Onitsuka T, Niznikiewicz MA, Spencer KM, Frumin M, Kuroki N, Lucia LC, Shenton ME, McCarley RW: Schizophrenia is associated with functional and structural deficits in brain regions subserving face processing. Am J Psychiatry (In Press).

Publications (continued) Algorithm Development Eric Pichon, Delphine Nain, and Marc Niethammer. A Laplace Equation Approach for Shape Comparison. Proc SPIE Medical Imaging, 2006. K.M. Pohl, J. Fisher, J.J. Levitt, M.E. Shenton, R. Kikinis, W.E.L. Grimson, and W.M. Wells, “ A Unifying Approach to Registration, Segmentation, and Intensity Correction, ” In Proc. MICCAI 2005: Eighth International Conference on Medical Image Computing and Computer Assisted Intervention, Palm Springs, CA, USA, Springer-Verlag, Part I, vol. 3749 of Lecture Notes in Computer Science, pp. 310-318, 2005 K.M. Pohl, S. Bouix, M.E. Shenton, W.E.L. Grimson, R. Kikinis, “Automatic Segmentation Using Non-Rigid Registration ” In short communications of MICCAI 2005: Eighth International Conference on Medical Image Computing and Computer Assisted Intervention, Palm Springs, CA, USA, 2005 Martin-Fernandez M, Bouix S, Ungar L, McCarley RW, Shenton ME. Two Methods for Validating Brain Tissue Classifiers. MICCAI 2005, Palm Springs, CA, USA: J. Duncan and G. Gerig (Eds.): Lecture Notes in Computer Science, volume 3749, pp 515-522, 2005. Springer-Verlag Berlin Heidelberg, 2005. O’Donnell L, Kubicki M, Shenton ME, Dreusicke MH, Grimson WEL, Westin CF. A method for clustering white matter fiber tracts. AJNR (In Press).

Members of the Psychiatry Neuroimaging Laboratory, Brigham and Women’s Hospital, and the Laboratory of Neuroscience, Brockton VA - HMS PUT IN DATA HERE [http://pnl.bwh.harvard.edu]