Journal Publications

1. C. R. Shyu, C. E. Brodley, A. C. Kak, A. Kosaka, A. M. Aisen and L. S. Broderick, ASSERT: A physician-in-the-loop content-based retrieval system for HRCT image databases, Computer Vision and Image Understanding, Special Issue on Content-Based Access of Image and Video Libraries, Vol.75, No.1/2, July/August, 1999, pp 111-132.

2. C. R. Shyu, C. Pavlopoulou, A. C. Kak, C. E. Brodely, and L. S. Broderick, Using Human Perceptual Categories for Content-Based Retrieval from a Medical Image Database, Computer Vision and Image Understanding, Vol. 88, Issue 3, 2002; 119-151.

3. C. R. Shyu, J. Harnsomburana, Y. Sethi, R. Singh, and J. Reid, A hybrid query approach for radiology education - integrating content-based medical image Retrieval and Text-Based Information Retrieval, International Journal on Computers and Applications, Vol. 24, Issue 2, 2002; 83-92.

4. S. H. Wei, C-M Chen, G. Strathdee, J. Harnsomburana, C. R. Shyu, F. Rahmatpanah, H. Shi, S-W Ng, P. S. Yan, K. P. Nephew, R. Brown, and T. Huang, Methylation microarray analysis of late-stage ovarian cancinomas distinguishes progression-free survival in patients and identifies candidate epigenetic markers, Clinical Cancer Research, 8(7), July 2002; 2246-2252.

5. A. M. Aisen, L. Broderick, H. Winer-Muram, C. E. Brodley, A. C. Kak, C. Pavlopoulou, J. Dy, C. R. Shyu, and A. Marchiori, Automated Storage and Retrieval of Medical Images to Assist Diagnosis: Implementation and Preliminary Assessment, Radiology, Vol. 228(1), July 2003:263-270.

6. T. Kazic, E. Coe, M. Polacco, and C. R. Shyu, Whither biological database research?, OMICS: A Journal of Integrative Biology, Vol. 7(1), Spring 2003:61-65.

7. F. K. Wang, J. Moore, J. Wedman, and C. R. Shyu, Developing a case-based reasoning knowledge repository to support the technology integration community, Educational Technology Research and Development, Vol. 51(3), 2003: 45-62.

8. C. R. Shyu, P. H. Chi , G. Scott , and D. Xu, ProteinDBS: A real-time retrieval system for protein structure comparison, Nucleic Acids Research, Vol. 32, July 2004, W572-W575.

9. J. Reneker, C. R. Shyu, P. Zeng, J. C. Polacco, and G. Walter, ACMES: Fast multiple-genome searches for short repeat sequences with concurrent cross-species information retrieval, Nucleic Acids Research, Vol. 32, July 2004, W649-W653.

10. E. D. Johnson, P. E. Pancoast, C. R. Shyu, J. A. Mitchell, Evaluation of a PDA-based alerting service for clinicians, Journal of the Medical Library Association, 92(4), October 2004:438-444.

11. P. H. Chi, G. Scott , and C. R. Shyu, A fast protein structure retrieval system using image-based distance matrices and multidimensional index, International Journal of Software Engineering and Knowledge Engineering, Special Issue on Software and Knowledge Engineering Support in Bioinformatics, Vol. 15(4), 2005.

12. A. S. Barb, C. R. Shyu, and Y. Sethi, Knowledge Representation and Sharing Using Visual Semantic Modeling for Diagnostic Medical Image Databases, IEEE Transactions on Information Technology in BioMedicine, Vol. 9(4), 2005, 538-553.

13. J. Reneker and C. R. Shyu, Refined repetitive sequence searches utilizing a fast hash function and cross species information retrievals BMC Bioinformatics, 6:111, 2005.

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Conference Publications

1. P. H. Chi and C. R. Shyu, Predicting ranked SCOP domains by mining associations of visual contents in distance matrices, to appear in Proc. of the Forth Asia-Pacific Bioinformatics Conference, Feb. 13-16, 2006, Taipei, Taiwan.

2. C. R. Shyu, A. Barb, and C. H. Davis, Mining image content associations for visual semantic modeling in geospatial information retrieval and indexing , in Proc. of International Geoscience and Remote Sensing Symposium, July 25-29, 2005, Seoul, Korea: 5622-5625.

3. M. Klaric, G. Scott, C. R. Shyu, and C. H. Davis, Automated object extraction through simplification of the differential morphological profile for high-resolution satellite imagery , in Proc. of International Geoscience and Remote Sensing Symposium, July 25-29, 2005, Seoul, Korea: 1265-1268.

4. G. Scott, M. Klaric, and C. R. Shyu, Modeling multi-object spatial relationships for satellite image database indexing and retrieval, in Proc. of International Conference on Image and Video Retrieval, Lecture Notes in Computer Science, July 20-22, 2005, Singapore: 247-256.

5. C. R. Shyu, G. Scott, M. Klaric , C. H. Davis, and K. Palaniappan, Automatic object extraction from full differential morphological profile in urban imagery for efficient object indexing and retrievals, to appear 3rd International Symposium Remote Sensing and Data Fusion Over Urban Areas (URBAN 2005), Tempe, Arizona, March 14-16, 2005.

6. P. H. Chi, G. Scott , and C. R. Shyu, A fast protein structure retrieval system using image-based distance matrices and multidimensional index, in the Proc. of IEEE Fourth Symposium on Bioinformatics and Bioengineering (BIBE2004), Taichung, Taiwan, May 19-21, 2004:522-531.

7. A. S. Barb, C. R. Shyu, and Yash Sethi, Semantic integration and knowledge exchange for diagnostic medical image databases, in the Proc. of IEEE Fourth Symposium on Bioinformatics and Bioengineering (BIBE2004), Taichung, Taiwan, May 19-21, 2004; 175-182.

8. G. Scott and C. R. Shyu, EBS k-d tree - an entropy balanced statistical k-d tree for image databases with ground-truth labels, Proc. of International Conference on Image and Video Retrieval, Lecture Notes in Computer Science , Vol. 2728: 467-476.

9. A. S. Barb and C. R. Shyu, Semantics modeling in diagnostic medical image databases using customized fuzzy membership functions, in the Proc. of IEEE International Conference on Fuzzy Systems, May 2003, St. Louis, MO; 1159-1164.

10. W. He, F. K. Wang, J. Strobel, C. R. Shyu, J. Harnsomburana, H. C. Hsieh, D. Cernusca and T. Means. Interface support for case retrieval in a Case-Based Reasoning knowledge repository. the Society for Information Technology & Teacher Education (SITE) Conference, March, 2003, Albuquerque, New Mexico.

11. J. Harnsomburana and C. R. Shyu, A hybrid indexing tree for efficient image database retrieval with dynamic feedback, the Proc. of International Conference on Pattern Recognition (ICPR 2002), Qu閎ec, Canada, August 2002; 263-266.

12. C. R. Shyu and P. Matsakis, Spatial lesion indexing for medical image databases using force histograms, in the Proc. of IEEE Int. Conf. on Computer Vision and Pattern Recognition (CVPR 2001), Vol. 2, Kauai, Hawaii, December 2001; 603 -608.

13. C. R. Shyu, S. A. Havermann, K. Stice, and G. L. Davis, RFLPRetriever: a content-based retrieval system for biological image databases, in the Proc. of SPIE Storage and Retrieval for Media Databases, 2002, Vol. 4676, San Jose, CA, January 2002; 98-105.

14. P. Zeng, J. Polacco, and C. R. Shyu, Development of repetitive sequence search engine for functional genomic study, The International Conference on Plant, Animal, and Microbe Genomes X, San Diego, CA, January 2002.

15. S. H. Wei, C-M Chen, H. Shi, P. S. Yan, J. Harnsomburana, C. R. Shyu, K. P. Nephew, R. Brown, and T. Huang, Methylation microarray analysis of late-stage ovarian cancinomas distinguishes progression-free survival in patients, in Proc. of American Association of Cancer Research (AACR) Epigenetics of Cancer Conference , October 2001.

16. F. K. Wang, C. R. Shyu, and D. Jonassen, Knowledge innovation for technology in education (KITE), International Conference on Society of Information Technology and Teacher Education (SITE 2002), Nashville, TN, March 2002.

17. C. R. Shyu, F. K. Wang, J. Harnsomburana, W. He, and J. Strobel, A case-base retrieval system for knowledge innovation for technology in education (KITE), in Proc. of the Sixth World Multiconference on Systemics, Cybernetics, and Informatics, Vol. II, Orlando, FL, July 2002; 228-233.

18. A. S. Barb and C. R. Shyu, A semantic query approach for diagnostic image database management - content-based access and knowledge exchange using XML, in Proc. of the Sixth World Multiconference on Systemics, Cybernetics, and Informatics , Vol. XVIII, Orlando, FL, July 2002; 162-167.

19. C. R. Shyu, J. Harnsombuarna, and D. Phasuk, A hybrid query approach for radiology education - integrating content-based medical image retrieval and text-based information retrieval, in the Proc. Of IASTED International Conference Internet and Multimedia Systems and Applications, Las Vegas, Nevada, November 2000; 436-441.

20. W. Mahamaneerat, C. R. Shyu, P. Yan, and T. H-M Huang, Applying data mining and gene selection for cancer research, in the 7th Annual Asia Pacific Decision Sciences Institute (APDSI) Annual Meeting, July 24-27,2002, Bangkok, Thailand.

21. C. R. Shyu, C. E. Brodley, A. C. Kak, A. Kosaka, A. Aisen and L. Broderick, Local versus global features for content-based image retrieval, in Proc. IEEE Workshop of Content-Based Access of Image and Video Libraries, Santa Barbara, CA, June 1998, pp 30-34.

22. C. R. Shyu, A. C. Kak, C. E. Brodley and L. S. Broderick, Testing for human perceptual categories in a physician-in-the-loop CBIR system for medical imagery, in Proc. IEEE Workshop of Content-Based Access of Image and Video Libraries, Fort Collins, Colorado, June 1999, pp 102-108.

23. C. R. Shyu, T. Cai, and L. S. Broderick, Archiving and retrieval of sequential images from tomographic databases in PACS, in Proc. of SPIE - the International Society for Optical Engineering. v3656 1999, pp 33-40.

24. C. R. Shyu, A. C. Kak, C. E. Brodley, C. Pavlopoulou, M. F. Chyan, and L. S. Broderick, A web-based CBIR-assisted learning tool for radiology education - anytime and anyplace, in Proc. IEEE International Conference on Multimedia and Expo, New York City, NY, July 2000.

25. Brodley CE, Kak A, Dy JG, Shyu CR, Aisen AM, Broderick LS, Content-based retrieval from medical image databases: A synergy of human interaction, machine learning and computer vision , in Proc. of the Sixteenth National Conference on Artificial Intelligence (AAAI'99), Orlando Florida, July 1999.

26. Dy J. G., Brodley C. E., Kak A., Shyu C.R., Broderick L.S., The customized-queries approach to CBIR using EM, in Proc. of IEEE Conference on Computer Vision and Pattern Recognition, Fort Collins, Colorado, June 1999.

27. J. G. Dy, C. E. Brodley, A. C. Kak, C. R. Shyu and L. Broderick, The customized-queries approach to CBIR, in Proc. of SPIE Storage and Retrieval for Image and Video Databases, VII, 25-29, January 1999, San Jose, CA.

28. S. D. MacArthur, C. E. Brodley, C. R. Shyu, Relevance feedback decision trees in content-based image retrieval, in Proc. of the IEEE Workshop on Content-Based Access of Image and Video Libraries, Hilton Head, SC, June 2000: 68-72