1. National Alliance for Medical Image Computing http://www.na-mic.org NA-MIC Work of Tannenbaum Group Computer Science and Mathematics Stony Brook University

2. National Alliance for Medical Image Computing http://www.na-mic.org In collaboration with (no particular order): Steven Haker Tauseef ur-Rehman Ayelet Dominitz Eric Pichon Delphine Nain Yi Gao Ivan Kolesov LiangJia Zhu Samuel Dambreville James Malcolm Ganesh Sundaramoorthi Behnood Gholami Marc Niethammer Oleg Michaelovich Namrata Vaswami Peter Karasev Arie Nakhmani Yogesh Rathi Patricio Vela Vandana Mohan Shawn Lankton Gozde Unal Students and Postdocs

3. National Alliance for Medical Image Computing http://www.na-mic.org Assorted Projects Segmentation: Local/Global, Sobolev, Finsler, Steerable, Optimal Control Shape Theory: Spherical Wavelets, OMT Registration: OMT, Particle Filtering, Optimal Control Meshing (hexahedral) Conformal maps (brain warping, colon fly- throughs)

4. National Alliance for Medical Image Computing http://www.na-mic.org KSlice Interactive Segmentation Added Features: ● Editor module ● Inter-slice interpolation ● Control of user input function ● Choice for image cost functional ● Selection of tools for input

5. National Alliance for Medical Image Computing http://www.na-mic.org 3D Interactive Segmentation GrowCut method Easy for user interaction Slow for 3D images Level sets method Flexible to segment complex structures Rely on good initialization 3D interactive segmentation Fast GrowCut for initialization Level sets refinement, Slicer modules e.g. KSlice

6. National Alliance for Medical Image Computing http://www.na-mic.org Comparison MethodSegmentation time (seconds)Memory (MB) Quantitative 1st edit2nd edit3rd editDiceVol. Overlap GrowCut21025526920097% Proposed2833522 GrowCut: Proposed: Lung segmentation: image ROI [503 333 43] 3 rounds of interaction/editing

7. National Alliance for Medical Image Computing http://www.na-mic.org December 15 7 Particle Filtering

8. National Alliance for Medical Image Computing http://www.na-mic.org 8 Particle Filtering

9. National Alliance for Medical Image Computing http://www.na-mic.org Particle Filtering Registration

10. National Alliance for Medical Image Computing http://www.na-mic.org

11. Longitudinal shape analysis

12. National Alliance for Medical Image Computing http://www.na-mic.org Traumatic Brain Injury

13. National Alliance for Medical Image Computing http://www.na-mic.org Fibrosis distribution analysis AFib recurrence after RF ablation Group 1, cured Group 2, recurrence Hypothesis: Group-wise difference between 1 and 2 Shape and fibrosis (intensity) distribution

14. National Alliance for Medical Image Computing http://www.na-mic.org Results Gray: no-statistical difference. Color region: statistically different regions.

15. National Alliance for Medical Image Computing http://www.na-mic.org Hexahedral Meshes

16. National Alliance for Medical Image Computing http://www.na-mic.org Future Work Compressive Sensing/Mass Spec/Raman Spectroscopy for better tumor margin delineation (Nathalie Agar, Alex Golby, Yi Gao) DECS for neurosurgery/validation (Sonia Pujols, Yi Gao) Microanatomical imaging (Joel Saltz) Radiation oncology (Harini V., Joe Deasy, Greg Sharp, Ivan Kolesov, Yi Gao) Fibrosis analysis (Rob MacLeod, Josh Cates, Yi Gao, LiangJia Zhu)

17. National Alliance for Medical Image Computing http://www.na-mic.org Conclusions Thank you to all the collaborators and especially to Ron Kikinis for giving us this great opportunity! May the Force be with you and Slicer.