BioComputing & Vision Lab   BioVIL
 

 
Selected Journal Articles & Book Chapters:
  • J. Oh, P. Gurnani, L. Knowles, J. Schorge, K. Rosenblatt, and J. Gao, "An extended Markov blanket approach to proteomic biomarker detection from high-resolution mass spectrometry data," IEEE Transactions on Information Technology in Biomedicine, accepted, October 2008.
  • J. Oh, Y. Kim, P. Gurnani, K. Rosenblatt, and J. Gao, "Biomarker selection and sample prediction in multi-category disease on MALDI-TOF data," Bioinformatics, (impact factor: 4.894), vol. 24, no. 16, pp. 1812-1818, 2008.
  • N. Thakoor, J. Gao, and V. Devarajan, "Multi-stage branch-and-bound merging for planar surface segmentation in disparity Space," IEEE Transactions on Image Processing, accepted, July 2008.
  • Q. Wen, K. Luby-Phelps, and J. Gao, "Tracking multiple subcellular structures using a sequential Monte Carlo approach," International Journal of Data Mining & Bioinformatics, vol. 3, no. 3, 2009.
  • S. Pan, J. Rush, E. R. Peskind, D. Galasko, K. Chung, J. Quinn, J. Jankovic, J. B. Leverenz, C. Zabetian, C. Pan, Y. Wang, J. Oh, J. Gao, J. Zhang, T. Montine and J. Zhang, "Application of targeted quantitative proteomics analysis in human cerebrospinal fluid using an LC MALDI TOF/TOF platform," Journal of Proteome Research, (impact factor: 5.151), accepted, 2007.
  • S. Gopinath, Q. Wen, N. Thakoor, K. Luby-Phelps, J. Gao, "A statistical approach for intensity loss compensation of confocal microscopy images," Journal of Microscopy (Blackwell publishing), vol. 230, pp. 143-159, 2008.
  • N. Thakoor, J. Gao and S. Jung, "Hidden Markov model based weighted likelihood discriminant for 2D shape classification," IEEE Transactions on Image Processing, vol. 16, Issue 11, pp. 2707 - 2719, Nov. 2007.
  • J. Xue, G. Arbique, D. Hatef, S. Brown, M. Saint-Cyr, J. Gao, "Four-dimensional vascular tree reconstruction using moving grid deformation,"  Academic Radiology, vol. 14, Issue 12, pp. 1540-1553, Dec. 2007.
  • H. Shu, Q. Liang, and J. Gao, "Wireless sensor network lifetime analysis using interval type-2 fuzzy logic systems," IEEE Transactions on Fuzzy Systems, vol. 16, no. 2, pp. 416-427, 2008.
  • P. Machalak, Y. Kim, and J. Gao, "Computational challenges of microarray analysis," in Computational Genomics: Current Methods, Horizon Scientific Press, Hethersett, UK, 2007.
  • J. Oh, A. Nandi, P. Gurnani, L. Knowles, and J. Schorge, K. Rosenblatt, and J. Gao, "Identifying biomarkers to predict early relapse in ovarian cancer," Journal of Bioinformatics and Computational Biology (JBCB), vol.4, no.6, 2006. 
  • J. Gao, "New discoveries of image display size on observer performance," Academic Radiology (Elsevier), vol.13, no.4, pp.407-408, 2006.
  • J. Oh and J. Gao, "A two-way parallel searching for peptide identification via tandem mass spectrometry," Special Issue on Bioinformatics, Engineering Letters, (invited paper) accepted in June 2006.
  • J. Gao, A. Kosaka, and A. Kak, "A multi-Kalman filtering approach for video tracking of human-delineated objects in cluttered environments," Computer Vision and Image Understanding, vol. 99, no. 1, pp. 1-57, 2005.
  • K. Nojima, S. Brown, C. Acikel, J. Janis, G, Arbique, T. Abulezz, J. Gao, Q. Wen, K. Kurihara, R. Rohrich, "Defining vascular supply and territory of thinned perforator flaps: Part II. superior gluteal artery perforator flap," Plastic and Reconstructive Surgery, vol. 118, no. 6, pp. 1338-1348, 2006.
  • J. Oh, J. Gao, A. Nandi, P. Gurnani, L. Knowles, J. Schorge, and K. Rosenblatt, "Diagnosis of early relapse in ovarian cancer using serum proteomic profiling," Genome Informatics, vol.16, no. 2, pp.195-204, 2005.
  • N. Thakoor and J. Gao, "Occlusion resistant shape classifier based on warped optimal path matching," International Transactions on Communication and Signal Processing, vol. 9, no. 1, 2006.
  • J. Gao, A. Kosaka, and A. Kak, "A deformable model for human CT liver extraction," Academic Radiology (Elsevier), vol. 12, no.9, pp. 1178-1189, 2005
  • J. Gao and L. Waite, "Patellofemoral joint study via image processing," Biomedical Sciences Instrumentation, pp. 151-160, vol. 32, 1996.
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    Selected Conference Publications:

  • N. Thakoor and J. Gao, "Branch-and-bound hypothesis selection for two-view multiple structure and motion segmentation," Accepted for presentation at IEEE International Conference on Computer Vision and Pattern Recognition (IEEE CVPR), 2008.
  • Q. Wen and J. Gao, "Tracking interacting subcellular structures by sequential Monte Carlo method," Proceedings of IEEE Engineering in Medicine and Biology Society (IEEE EMBC), pp. 4185-4188, Lyon, France, Aug 22-26, 2007.
  • J. Xue, J. Gao, and L. Tang, "Phagocyte transmigration modeling using system dynamic controls," Proceedings of IEEE Symposium of Bioinformatics and Bioengineering (IEEE BIBE) (full paper acceptance rate < 12%, 60/500+), pp. 480-485, Boston, MA, Oct 14-17, 2007
  • J. Oh, Y. Kim, P. Gurnani, K. Rosenblatt, and J. Gao, "Biomarker selection for predicting Alzheimer disease using high-resolution MALDI-TOF data," Proceedings of IEEE Symposium of Bioinformatics and Bioengineering (IEEE BIBE), pp. 464-471, (full paper acceptance rate < 12%, 60/500+), Boston, MA, Oct 14-17, 2007.
  • J. Xue, J. Gao, G. Arbique, S. Brown, and M. Cyr-Saint, "Three dimensional analysis of the vascular perfusion for anterolateral thigh perforator flaps," Proc. of SPIE Medical Imaging, San Jose, CA, Feb 11-16, 2007.
  • Y. Kim and J. Gao, "Unsupervised gene selection for high dimensional data," Proceedings of IEEE Symposium of Bioinformatics and Bioengineering (IEEE BIBE) (38.8% regular paper acceptance rate), pp. 227-232, Washington DC, Oct 16-18, 2006.
  • Q. Wen, J. Gao, and K. Luby-Phelps, "Markov chain Monte Carlo data association for protein clusters tracking," Proceedings of IEEE International Conference on Pattern Recognition (IEEE ICPR), (15% oral acceptance rate), vol. 1, pp. 1030-1033, Hong Kong, Aug. 20-24, 2006.
  • J. Oh, A. Nandi, P. Gurnani, L. Knowles, J. Schorge, K. Rosenblatt, and J. Gao, "A hybrid feature selection for MALDI-TOF mass spectrometry data analysis," Proceedings of IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (IEEE CIBCB), pp. 36-43, Toronto, Canada, Sept 28-29, 2006.
  • N. Thakoor, J. Gao, Q. Wen, and S. Jung, "Occlusion resistant shape classifier based on warped optimal path matching," Proceedings of IEEE International Conference on Pattern Recognition (IEEE ICPR), vol. 2, pp. 60-63, (15% oral acceptance rate), Hong Kong, Aug. 20-24, 2006.
  • Q. Wen, J. Gao, and K. Luby-Phelps, "Feature selection, matching, and evaluation for subcellular structure tracking," Proceedings of IEEE Engineering in Medicine and Biology Society (IEEE EMBC), pp. 3013-3016, New York, USA, Aug. 30-Sept. 3, 2006.
  • Y. Kim, J. Gao, and P. Michalak, "A new maximum-relevance criterion for significant gene selection," Lecture Notes in Bioinformatics, (IEEE Workshop on Pattern Recognition in Bioinformatics, Hong Kong, Aug 20, 2006), vol.4146, pp. 71-80, Springer Verlag, 2006.
  • Q. Wen, J. Gao, A. Kosaka, H. Iwaki, K. Luby-Phelps, and D. Mundy, "A particle filter framework using optimal importance function for protein molecules tracking," Proc. IEEE International Conference on Image Processing (IEEE ICIP) (acceptance rate 46%), vol.1, pp.1161-1164, Genova, Sept 11-14, 2005.
  • J. Oh and J. Gao, "Peptide identification by tandem mass spectra: an efficient parallel searching," Proceedings of IEEE Symposium on Bioinformatics and Bioengineering (IEEE BIBE) (full paper acceptance rate 18%, 30 out of 164,), pp.161-168, Minneapolis, MN, Oct 19-21, 2005.
  • N. Thakoor and J. Gao, "Shape classification based on generalized Gaussian descent method with hidden Markov model descriptor," Proceedings of IEEE International Conference on Computer Vision (IEEE ICCV) (blind review, acceptance rate: 20.4%, 245 out of 1200), vol.1, pp.495-502, Beijing, China, Oct 15-21, 2005.
  • J. Oh, J. Gao, A. Nandi, P. Gurnani, L. Knowles, J. Schorge, and K. Rosenblatt, "Multicategory classification using extended SVM-RFE and Markov blanket on SELD I-TOF mass Spectrometry data," Proceedings of IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (IEEE CIBCB), pp. 1-7, San Diego, CA, Nov 14-15, 2005.
  • Y. Kim and J. Gao, "A new semi-supervised subspace clustering algorithm on fitting mixture models," Proceedings of IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (IEEE CIBCB), pp. 1-8, San Diego, CA, Nov 14-15, 2005.
  • N. Thakoor and J. Gao, "Automatic video object shape extraction and its classification with camera in motion," Proc. IEEE International Conference on Image Processing (IEEE ICIP), (acceptance rate 46%), vol.3, pp.437-440, Genova, Sept 11-14, 2005.
  • Q. Wen and J. Gao, "Shape-based 3D vascular tree extraction for perforator flaps," Proc. of SPIE Medical Imaging, vol. 5747, pp.1855-1863, San Diego, CA, Feb 12-17, 2005.
  • Y. B. Kim, J. H. Oh, and J. Gao, "Emerging pattern based subspace clustering of microarray gene expression using mixture models," Proceedings of International Conference on Bioinformatics and its Applications (ICBA) (acceptance rate 28%), pp. 13-24, Fort Lauderdale, FL, Dec 16-19, 2004.
  • J. H. Oh, Y.B. Kim, and J. Gao, "A two-way searching algorithm for De Novo peptide sequencing via tandem mass spectrometry," Proceedings of International Conference on Bioinformatics and its Applications (ICBA) (acceptance rate 28%), pp. 402-413, Fort Lauderdale, FL, Dec 16-19, 2004.
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