Innovative search engines for non- textual biomedical data Chi-Ren Shyu Informatics Institute Computer Science Department University of Missouri - Columbia These are talented minds behind the engines! Engines to drive scientific discovery Entropy-Balanced Statistical k-d tree Grant Scott, and Chi-Ren Shyu. Knowledge Driven Multidimensional Indexing Structure for Biomedical Media Database Retrieval, IEEE Transactions on Information Technology in Biomedicine, Vol. 11, No. 3 , May 2007; 320-331 Some experimental results HRCT Lung Image Database Protein 3D structure global Match P. H. Chi, B. Pang, D. Korkin, C. R. Shyu, Efficient SCOP fold classification and retrieval using index-based protein substructure alignments (IPSA), Bioinformatics, 2009. C. R. Shyu, B. Pang, P. H. Chi, N. Zhao, D. Korkin, and D. Xu, ProteinDBS v2.0: a web server for global and local protein structure search, in Nucleic Acids Research, Vol 38 (S2) July 2010: W53-W58. N. Zhao, B. Pang, C. R Shyu, and D. Korkin, Structural Similarity and Classification of Protein Interaction Interfaces, PLOS One, 6(5) 2011. doi:10.1371 Biological Images – Multiple Visual Cues for Meaningful Interpretation PhenomicsWorld.org Chi-Ren Shyu, Jason Green, D. P. K. Lun, Toni Kazic, M. Schaeffer, and Ed Coe. Image Analysis for Mapping Immeasurable Phenotypes in Maize, in IEEE Signal Processing Magazine, Vol. 24, No. 3 , May 2007; 116-119 M. Klaric, G Scott, C. Davis, and C. R. Shyu, Multi-Index and Multi-Object Retrieval, IEEE Trans. on Geosciences and Remote Sensing, 2012 (accepted) Semantic-based search Automatic phenotype annotations Analyzing Eye Activities Mining patterns from fixations and saccades of the eye tracking data. X. Wang, S. Erdelez, C. Allen, B. Anderson, H. Cao, and C. R. Shyu, The Role of Domain Knowledge in Developing User-Centered Medical Image Indexing, Journal of the American Society for Information Science and Technology (JASIST ), 2011 (accepted). Case-based reasoning system Cool search methods and many potential applications. Acknowledgement – Funding Sources NSF DBI-0447794, IIS-0812515, DBI-1053024 NGA HM1582-04-1-2028 NLM 2T15LM007089-17 Shumaker Endowment for Biomedical Informatics Acknowledgement - Collaborators Maize Phenotype Image Databases: Jerry Neuffer, Ph.D. (MU), Ed Coe, Ph.D. (USDA), Mary Schaeffer, Ph.D. (USDA), Carolyn Lawrence, Ph.D. (Iowa), Guri Johal, Ph.D. (Purdue), Peter Balint-Kurti (USDA), and Toni Kazic, Ph.D. (MU). Mitochondrial image Database: Ge Yang, Ph.D. (CMU) Current and former students: Grant Scott, Ph.D., Matthew Klaric, Ph.D., Adrian Barb, Ph.D., Pin-Hao Chi, Ph.D., Jaturon Harnsomeburana, Ph.D., Jason Green, Jing Ginger Han, Blake Anderson, Xin Wang, Hongfei Cao, Carla Allen, and Eric Armstrong.
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