Vol: 55(69) No: 3 / September 2010 A Spatial Representation and Reasoning Approach for Breast Cancer Grading Ontology A. E. Tutac Department of Computer Science and Engineering, “Politehnica” University of Timisoara, Faculty of Automation and Computers, 2 V.Parvan Blvd, Timisoara, Romania, e-mail: tutac@cs.upt.ro V. I. Cretu Department of Computer Science and Engineering, “Politehnica” University of Timisoara, Faculty of Automation and Computers, 2 V.Parvan Blvd, Timisoara, Romania, e-mail: vladimir.cretu@cs.upt.ro D. Racoceanu Faculty of Sciences and Technologies, University of Franche Comté, 16 Route de Gray 25030, Besançon, France, e-mail: daniel.racoceanu@ens2m.fr Keywords: knowledge representation, formal reasoning, breast cancer grading ontology, spatial representation, cognitive virtual microscopy Abstract The most emphasized way of representing the knowledge from domains of real world is the ontology, which is undoubtedly the trend of current years. In medical applications such as breast cancer grading, formal ontological representation is of high relevance from both medical and scientific standpoints, due to the importance of grading in the prognosis process and to the capacity to narrow the semantic gap. However, since the representation deals with histopathology images, a spatial representation and reasoning is required. We extend our breast cancer grading ontology with spatial representation and spatial reasoning support and we show how it helps in overcoming the inconsistencies and ambiguities. The ontology is integrated in a cognitive virtual microscope platform guiding the image exploration and assisting the grading process. References [1] O. Steichen, C. Daniel - Le Bozec, M. Thieu, E. Zapletal and M.C. Jaulent, “Computation of semantic similarity within an ontology of breast pathology to assist inter-observer consensus,” Computers in Biology and Medicine, vol. 36, no. 7, pp. 768–788, July 2006. [2] F. Baader, D.L. McGuiness, D. Nardi, and P.F. Patel-Schneider, The Description Logic Handbook: theory, implementation and, applications, Cambridge Univ Press, 2nd ed., 2007. [3] J. Bateman, and S. Farrar, “Spatial Ontoloy Baseline”, Tech. Rep, Bremen, SFB/TR8, 2005. [4] M. Donnelli, T. Bittner, and C. Rosse, “A formal theory for spatial representation and reasoning in biomedical ontologies”, Artificial Intelligence in Medicine, vol. 36, pp. 1-27, Jul. 2005. [5] S. Schulz, P. Daumke, B. Smith, and U. Hahn, “How to distinguish between parthood and location in bio-ontologies”, AMIA Annu Symposium Proc., pp.669- 673, 2005. [6] J.L.V. Mejino, D.L. Rubin, and J.F. Brinkley, “FMA-RadLex: An Application Ontology of Radiological Anatomy derived from the Foundational Model of Anatomy Reference Ontology,” AMIA Annual Symposium Proc., pp. 465–469, Nov. 2008. [7] A. Mechouche, X. Morandi. C. Golbreich, and B. Gibaud, “A hybrid system using symbolic and numeric knowledge for the semantic annotation of sulco-gyral anatomy in brain MRI images”, IEEE Transactions on Medical Imaging, vol. 28, no.8, pp. 1165-1178, Aug. 2009. [8] C. Hudelot, J. Atif, and I. Bloch, “Ontologies de relations spatiales floues pour l\'interprétation d\'images”, in Rencontres francophones sur la logique floue et ses applications, Toulouse, pp. 363-370, 2006. [9] V. Mezaris, I. Kompatsiaris, and M. G. Strintzis, \"Region-based Image Retrieval using an Object Ontology and Relevance Feedback\", EURASIP Journal on Applied Signal Processing, Special Issue on Object-Based and Semantic Image and Video Analysis, vol. 2004, no. 6, pp. 886-901, June 2004. [10] V. Damjanović, D. Gašević, and V. Devedžić, “Ontology Validation”, in Proc. 6th International Conference of Information Technology, Bhubaneswar, pp.183-186, 2003. [11] M. Uschold and M. Grüninger, “Ontologies: Principles, Methods and Applications,” Knowledge Engineering Review, vol. 11, no. 2, pp. 93–155, 1996. [12] O. Bodenreider, and S. Zhang, “Comparing the representation of anatomy in the FMA and SNOMED-CT”, AMIA Annu Symposium Proc., pp.46-50, 2006. [13] E.S. Berner, Clinical Decision Support Systems: theory and practice, Springer-Verlag, New York, pp.77-99, 1999. [14] J. Golbeck, G. Fragoso, F. Hartel, J. Hendler, J.Oberthaler, and B. Parsia, “The National Cancer Institute’s Thesaurus and Ontology”, Journal of Web Semantics, pp.75-80, Jul. 2003. [15] T. Wang, and B. Parsia, “Ontology performance profiling and model examination: first steps”, in Semantic Web, vol. 4825, Springer-Verlag, Berlin, Heildelberg, Ed, pp.595-608, 2008. [16] A.E. Tutac, D. Racoceanu, T. Putti, W. Xiong, W.K. Leow and V. Cretu, “Knowledge-Guided Semantic Indexing of Breast Cancer Histopathology Images”, BioMedical Engineering and Informatics: New Development and the Future, Proc. BMEI, ed.Yonghong Peng & Yufeng Zhang, ,vol.2, pp. 107-112, China, 2008. [17] L. Roux, A. Tutac, N. Loménie, D. Balensi, A. Veillard, D. Racoceanu, W. K. Leow, J. Klossa, and T. Putti, “A cognitive virtual microscopic framework for knowledge-based exploration of large microscopic images in breast cancer histopathology,” in Annual International Conference of the IEEE Engineering in Medicine and Biology Society, 2009. [18] C.Hudelot, J.Atif and I.Bloch, “A spatial relation ontology using mathematical morphology and description logics for spatial reasoning”, ECAI workshop on Spatial and Temporal Reasoning, pp.21-25, July.2008. [19] M.Stocker and E.Sirin, “PelletSpatial: A Hybrid RCC-8 and RDF/OWL Reasoning and Query Engine”, Proc. OWL: Experiences and Directions (OWLED), 6th International Workshop, vol. 529, 2009. [20] S.Li and M.Ying, “Region connection calculus: its models and composition table”, Artificial Intelligence, vol. 145, no.1-2, pp. 121-146, 2003. [21] Region connection calculus, http://en.wikipedia.org/wiki/Region_connection_calculus, accessed 2010. [22] A. E. Tutac, V. I. Cretu and D. Racoceanu, “Spatial Representation and Reasoning in Breast Cancer Grading Ontology”, in Proc. ICCC-CONTI 2010, Timisoara, Romania, 2010. |