National Science Foundation (NSF) Research Experience for Undergraduates (REU) Program

1. National Science Foundation (NSF) Research Experience for Undergraduates (REU) Program MedIX Site: Medical Informatics DePaul University & Northwestern University June 18th –August 24th, 2007

2. NSF REU MedIX Program MedIX: Medical Informatics eXperiences in undergraduate research Goals: • promote the possibility of graduate studies for bright, talented undergraduates • promote and encourage interdisciplinary studies in Computer Science and Medical Informatics to undergraduate students NSF REU Program - 2006

3. NSF REUs & IGERT National Science Foundation (NSF): - Research Experience for Undergraduates (REU) Program: http://www.nsf.gov/funding/pgm_summ.jsp?pims_id=5517&from=fund - 2002: 18 CISE REU sites - 2007: 43 CISE REU sites (21 states) - IGERT: Integrative Graduate Education and Research Traineeship Program http://www.nsf.gov/funding/pgm_summ.jsp?pims_id=12759 NSF REU Program - 2006

4. CTI Graduate Assistantships Funding Opportunities for graduate students: @CTI, DePaul University: • GAANN fellowships: • Graduate Assistance in Areas of National Need • http://www.ed.gov/programs/gaann/index.html • CTI assistantships • http://www.cti.depaul.edu/programs/PHDinCS.asp NSF REU Program - 2006

5. NSF REU MedIX Program Benefits of doing research at the undergraduate level: • participation as part of a team • teams of two undergraduate students and one faculty mentor • work performed in research labs: • CTI Intelligent Multimedia Processing (IMP) lab • CTI Medical Imaging (MI) lab • Northwestern Imaging Informatics Center • collaborations with graduate students working on the projects NSF REU Program - 2006

6. Summer 2005 NSF REU Program - 2006

7. Summer 2006 NSF REU Program - 2006

8. NSF REU MedIX Program Benefits of doing research at the undergraduate level: • active involvement with  faculty mentors - three computer science faculty mentors (two females) and one medical doctor mentor - weekly meetings with the mentor - mentor availabilities: Monday: Dr. Furst, Tuesday: Dr. Channin, Wednesday: Dr. Raicu, Thursday: Dr. Dettori, Friday: all mentors NSF REU Program - 2006

9. NSF REU MedIX Program Original Image Initial Seed at 90% Split & Merge at 85% Split & Merge at 80% Benefits of doing research at the undergraduate level: • participation in current and interdisciplinary research Example of a MedIX project from Summer 2006: Liver Segmentation:M. Pham, R. Susomboon, T. Disney, D. Raicu, J. Furst, “A Comparison of Texture Models for Automatic Liver Segmentation”,SPIE Medical Imaging Conference, San Diego, CA, February 2007. NSF REU Program - 2006

10. NSF REU MedIX Program Benefits of doing research at the undergraduate level: • presentation, dissemination of results, rewards of publishing and attending conferences • Internal presentations: • Presentations at the Visual Computing Seminar (each Friday) • Mid-Program and Final program Presentations (July 19th and August 23rd) • External presentations: • Conferences in themedical imaging field NSF REU Program - 2006

11. NSF REU Program • Number of students (2005, 2006) • 17 students • Open Source • Texture-based Medical Image Retrieval code on Sourceforge: http://brisc.sourceforge.net/ • CRA Outstanding Undergraduate Research Awards • 1 Honorable Mention Award 2006 • Publications • 12 papers, 2 abstracts and 3 posters NSF REU Program - 2006

12. Medical Informatics (MediX) Site - 2007 • S. I. Greenblum, M. O. Krucoff, J. Furst, D. Raicu, “An Automated Approach to Image Analysis of Noisy Microarrays”, VISAPP 2007, International Conference on Computer Vision Theory and Applications, Barcelona, Spain, March 8-11, 2007. • T. Disney, M. Lam, D. Raicu, J. Furst, D. Channin, “A Lookup and Reference Tool for Pulmonary Computed Tomography Nodules”,The 2007 Annual Meeting of the Society for Imaging Informatics in Medicine (SIIM 2007), Rhode Island, June 2007 (to appear). • S. J. Talbot, P. Mongkolwat, T. R. Amirtha, D. S. Channin, “Advancing Advanced Visualization in the Clinical Environment”,The 2007 Annual Meeting of the Society for Imaging Informatics in Medicine (SIIM 2007), Rhode Island, June 2007 (to appear) . • L. Dettori, A. Bashir, J. Hasemann, “Texture Classification of Normal Tissues in Computed Tomography using Gabor filters”, SPIE Medical Imaging Conference, San Diego, CA, February 2007. • M. Pham, R. Susomboon, T. Disney, D. Raicu, J. Furst, “A Comparison of Texture Models for Automatic Liver Segmentation”,SPIE Medical Imaging Conference, San Diego, CA, February 2007. • M. Lam, T. Disney, M. Pham, D. Raicu, J. Furst, R. Susomboon, “Content-Based Image Retrieval for Pulmonary Computed Tomography Nodule Images”,SPIE Medical Imaging Conference, San Diego, CA, February 2007. NSF REU Program - 2006

13. Medical Informatics (MediX) Site – 2006 (1) • A. Bashir, J. Hasemann, L. Dettori, "Gabor-based Texture Classification of Tissues in Computed Tomography”,DePaul Science Day, November 10th 2006 (poster). • S. I. Greenblum, M. O. Krucoff, J. Furst, “A Fully-Automated Method for Microarray Image Analysis”, The Seventeenth (17th ) Annual Argonne Symposium for Undergraduates in Science, Engineering and Mathematics, Argonne National Laboratory, IL, November 2006 (Poster). • A. Bashir, J. Hasemann, L. Dettori, "Using Decision Trees for Gabor-based Texture Classification of Tissues in Computed Tomography” , Workshop for Women in Machine Learning (WIML) Co-located with the Grace Hopper Celebration of Women in Computing, San Diego, CA, October 2006 (Poster). • L. Semler, L. Dettori. and W. Kerr, "Ridgelet-based Texture Classification in Computed Tomography",  The 8th IASTED International Conference on Signal and Image Processing, Honolulu, HW, August 2006.  • W. Kerr, L. Dettori, and L. Semler, "A Methodology and Metric for Quantitative Analysis and Parameter Optimization of Unsupervised, Multi-Region Image Segmentation", The 8th IASTED International Conference on Signal and Image Processing, Honolulu, HW, August 2006. NSF REU Program - 2006

14. Medical Informatics (MediX) Site – 2006 (2) • Semler, L. & Dettori, L. "Curvelet-based Texture Classification of Tissues in Computed Tomography,"  IEEE International Conference on Image Processing (ICIP06) Atlanta, GA, USA. October, 2006. • L. Semler, L. Dettori, “A Comparison of Wavelet-based and Ridgelet-based Texture Classification of Tissues in Computed Tomography”, International Conference on Computer Vision and Applications, Portugal, February 2006. • N.J. Backman, B.W. Whitney, J.D. Furst, D.S. Raicu, “A prioritized and adaptive approach to volumetric seeded region growing using texture descriptors”, Proceedings of SPIE Electronic Imaging, San Jose, CA, January 2006. • S. Handrick, B. Naimipour, J.D. Furst, D.S. Raicu, “Binning Strategies Evaluation for Tissue Classification in Computed Tomography Images”, Proceedings of SPIE Medical Imaging Conference, San Diego, CA, February 2006. • B.W. Whitney, N.J. Backman, J.D. Furst, D.S. Raicu, “Single click volumetric segmentation of abdominal organs in Computed Tomography images” , Proceedings of SPIE Medical Imaging Conference, San Diego, CA, February 2006. • R. Lerman, D.S. Raicu, J.D. Furst, “Contrast enhancement of soft-tissues in Computed Tomography images”, Proceedings of SPIE Medical Imaging Conference, San Diego, CA, February 2006 NSF REU Program - 2006

15. NSF REU MedIX Program Benefits of doing research at the undergraduate level: • great source of recommendation letters for graduate school  • glimpse into the life of a graduate student Activities of the REU Program (Summer 2007): http://facweb.cs.depaul.edu/research/vc/medix/2007/index.htm NSF REU Program - 2006

16. What REU MedIX Students Say About Research NSF REU Program - 2006