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A Web-accessible distributed data warehouse for brain tumour diagnosis

Published online by Cambridge University Press:  28 July 2011

Francesc Estanyol ,
Xavier Rafael ,
Roman Roset ,
Miguel Lurgi ,
Mariola Mier  and
Magi Lluch-Ariet
Francesc Estanyol*
Affiliation:
MicroArt, Parc Cientific de Barcelona, Baldiri Reixac 4-6, 08028, Barcelona, Catalonia, Spain; e-mail: [email protected], [email protected], [email protected], [email protected], [email protected]
Xavier Rafael*
Affiliation:
MicroArt, Parc Cientific de Barcelona, Baldiri Reixac 4-6, 08028, Barcelona, Catalonia, Spain; e-mail: [email protected], [email protected], [email protected], [email protected], [email protected]
Roman Roset*
Affiliation:
MicroArt, Parc Cientific de Barcelona, Baldiri Reixac 4-6, 08028, Barcelona, Catalonia, Spain; e-mail: [email protected], [email protected], [email protected], [email protected], [email protected]
Miguel Lurgi*
Affiliation:
MicroArt, Parc Cientific de Barcelona, Baldiri Reixac 4-6, 08028, Barcelona, Catalonia, Spain; e-mail: [email protected], [email protected], [email protected], [email protected], [email protected]
Mariola Mier*
Affiliation:
Pharma Quality Europe, Via Brunetto degli Innocenti, 2-50063 Figline Valdarno (FI), Italy; e-mail: [email protected]
Magi Lluch-Ariet*
Affiliation:
MicroArt, Parc Cientific de Barcelona, Baldiri Reixac 4-6, 08028, Barcelona, Catalonia, Spain; e-mail: [email protected], [email protected], [email protected], [email protected], [email protected]
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Abstract

Currently, biological databases (DBs) are a common tool to complement the research of a wide range of biomedical disciplines, but there are only a few specialized medical DBs for human brain tumour magnetic resonance spectroscopy (MRS) data; they typically store a limited range of biological data (i.e. clinical information, magnetic resonance imaging and MRS data) and are not offered as open-source Structured Query Language relational DB schemas. We present a novel approach to biological DBs: a distributed Web-accessible DB for storing and managing clinical and biomedical data related to brain tumours from different clinical centres. This tool is designed for multi-platform systems with dissimilar DB management systems. Being the main data repository of the HealthAgents (HA) project, it uses multi-agent technology and allows the centres to share data and obtain diagnosis classifications from other centres distributed around the world in a reliable way.

The HA project aims to create an agent-based distributed decision support system (DSS) to assist doctors to provide a brain tumour diagnosis and prognosis. The HA DB enables the DSS to totally integrate with its Graphical User Interface to perform classifications with the stored data and visualize the results using the HA distributed agents framework. This new feature converts the system presented in the first application in the world to combine a storage and management tool for brain tumour data and a complete Web-based DSS to obtain automatic diagnosis.

Type
Articles
Information
The Knowledge Engineering Review , Volume 26 , Special Issue 3: Computational Intelligence for Neuro-Oncological Diagnosis , 28 July 2011 , pp. 329 - 351
Copyright
Copyright © Cambridge University Press 2011

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References

Alger, J. R., Frew, A. J., Cloughesy, T. F., del Vecchio, W., Villablanca, J. P., Curran, J. G. 2002. Novel methodology for the archiving and interactive reading of clinical magnetic resonance spectroscopic imaging. Magnetic Resonance in Medicine 48(3), 411–418.CrossRefGoogle ScholarPubMed
Arús, C., Celda, B., Dasmahapatra, S., Dupplaw, D., González-Vélez, H., van Huffel, S., Lewis, P., Lluch i Ariet, M., Mier, M., Peet, A., Robles, M. 2006. On the design of a web-based decision support system for brain tumour diagnosis using distributed agents. In 2006 IEEE/WIC/ACM International Conference on Web Intelligence and Intelligent Agent Technology, 208–211.Google Scholar
Blaschke, C., Hirschman, L., Valencia, A. 2002. Information extraction in molecular biology. Briefings in Bioinformatics 3(2), 154–165.CrossRefGoogle ScholarPubMed
Chiang, I.-J., Shieh, M.-J., Yung-Jen Hsu, J., Wong, J.-M. 2005. Building a medical decision support system for colon polyp screening by using fuzzy classification trees. Applied Intelligence 22(1), 61–75.CrossRefGoogle Scholar
Croitoru, M., Hu, B., Dasmahapatra, S., Lewis, P., Dupplaw, D., Gibb, A., Julià-Sapé, M., Vicente, J., Saez, C., García-Gómez, J., Roset, R., Estanyol, F., Rafael, X., Mier, M. 2007. Conceptual graphs based information retrieval in HealthAgents. In CBMS '07: 20th IEEE International Symposium on Computer-Based Medical Systems, IEEE Computer Society, 618–623.Google Scholar
Exarchos, T., Giannakeas, N., Goletsis, Y., Papaloukas, C., Fotiadis, D. 2007. A framework for cancer decision support based on profiling by integrating clinical and genomic data: Application to colon cancer. In 8th International Workkshop on Mathematical Methods in Scattering Theory and Biomedical Engineering, 261–268.Google Scholar
Galperin, M. Y. 2008. The molecular biology database collection: 2008 update. Nucleic Acids Research 36, D2–D4.CrossRefGoogle Scholar
García-Gómez, J., Luts, J., Julià-Sapé, M., Krooshof, P., Tortajada, S., Vicente Robledo, J., Melssen, W., Fuster-García, E., Olier, I., Postma, G., Monleón, D., Moreno-Torres, A., Pujol, J., Candiota, A., Martínez-Bisbal, M., Suykens, J., Buydens, L., Celda, B., Van Huffel, S., Arús, C., Robles, M. 2008. Multiproject-multicenter evaluation of automatic brain tumor classification by magnetic resonance spectroscopy. Magnetic Resonance Materials in Physics, Biology and Medicine 22(1), 5–18.CrossRefGoogle ScholarPubMed
Golodetz, S., Voiculescu, I., Cameron, S. 2007. A proposed decision-support system for (renal) cancer imaging. In: FBIT '07: 2007 Frontiers in the Convergence of Bioscience and Information Technologies, 361–366.Google Scholar
González-Vélez, H., Mier, M., Julià-Sapé, M., Arvanitis, T. N., García-Gómez, J. M., Robles, M., Lewis, P. H., Dasmahapatra, S., Dupplaw, D., Peet, A., Arús, C., Celda, B., Van Huffel, S., Lluch-Ariet, M. 2009. HealthAgents: distributed multi-agent brain tumor diagnosis and prognosis. Applied Intelligence 30(3), 191–202.CrossRefGoogle Scholar
Holmes, J., Schalk, C. 2006. JavaServer Faces: The Complete Reference. McGraw-Hill Osborne Media.Google Scholar
Jarman, I. H., Etchells, T. A., Martín, J. D., Lisboa, P. J. G. 2008. An integrated framework for risk profiling of breast cancer patients following surgery. Artificial Intelligence in Medicine 42(3), 165–188.Google Scholar
Julià-Sapé, M., Acosta, D., Mier, M., Arús, C., Watson, D. & The INTERPRET consortium 2006. A multi-centre, web-accessible and quality control-checked database of in vivo MR spectra of brain tumour patients. Magnetic Resonance Materials in Physics, Biology and Medicine 19(1), 22–33.CrossRefGoogle ScholarPubMed
Kiris, E., Abrams, H., Longoria, R. 2007. User-centered design: Component-based web technology. In HCI (11), Lecture Notes in Computer Science 4560, 114–122. Springer.Google Scholar
Kwon, K., Kim, N., Cheon, S., Choi, H. 2004. A framework for developing distributed application with web-tier object modeling. MWSCAS '04: 47th IEEE International Midwest Symposium on Circuits and Systems 3, 251–254.Google Scholar
Lederer, A. L., Maupin, D. J., Sena, M. P., Zhuang, Y. 2000. The technology acceptance model and the world wide web. Decision Support Systems 29(3), 269–282.Google Scholar
Mamrak, S. A., Yates, A. J. 2006. An information system to support collaborative brain-tumor research. Brain Tumor Pathology 14(3), 131–137.Google Scholar
Manjón-Herrera, J. V., Martínez-Bisbal, M. C., Celda, B., Martí-Bonmatí, L., Robles, M. 2004. SIView 2.0: A new MR spectroscopy imaging tool. European Radiology Supplements 14(2), 300.Google Scholar
Martínez-Bisbal, M. C., Martí-Bonmatí, L., Piquer, J., Revert, A., Ferrer, P., Llácer, J. L., Piotto, M., Assemat, O., Celda, B. 2004. 1H and 13C HR-MAS spectroscopy of intact biopsy samples ex vivo and in vivo. NMR in Biomedicine 17(4), 191–205.Google Scholar
Merelli, E., Armano, G., Cannata, N., Corradini, F., d'Inverno, M., Doms, A., Lord, P., Martin, A., Milanesi, L., Möller, S., Schroeder, M., Luck, M. 2007. Agents in bioinformatics, computational and systems biology. Briefings in Bioinformatics 8(1), 45–59.CrossRefGoogle ScholarPubMed
Naressi, A., Couturier, C., Devos, J. M., Janssen, M., Mangeat, C., de Beer, R., Graveron-Demilly, D. 2001. Java-based graphical user interface for the MRUI quantitation package. Magnetic Resonance Materials in Physics, Biology and Medicine 12(2), 141–152.CrossRefGoogle ScholarPubMed
Radhouene, A. M., Sophie, S., Anne, F., Frederic, P., Olivier, P., Aron, M.-B., Dawn, T. J. 2009. Knowledge-based expert systems and a proof-of-concept case study for multiple sequence alignment construction and analysis. Briefings in Bioinformatics 10(1), 11–23.Google Scholar
Rafael-Palou, X., Rovatsos, M. 2009. Collaborative agent-based learning with limited data exchange. In AAMAS 2009: 8th International Conference on Autonomous Agents and Multiagent Systems, 1191–1192.Google Scholar
Roset, R., Lurgi, M., Croitoru, M., Hu, B., Lluch-Ariet, M., Lewis, P. 2008. A visual mapping tool for database interoperability: the HealthAgents case. In CS-TIW 2008: 3rd Conceptual Structures Tool Interoperability Workshop, Springer-Verlag, 1–10.Google Scholar
Ruggiero, C., Giacomini, M., Bonadonnac, G., Valagussa, P., Demicheli, R. 1998. The database design for a decision support system for breast cancer chemotherapy. In 20th Annual International Conference of the IEEE Engineering in Medicine and Biology Society 3, 1230–1233.Google Scholar
Shortliffe, E. H., Scott, A. C., Bischoff, M. B., Campbell, A. B., Melle, W. V., Jacobs, C. D. 1981. Oncocin: an expert system for oncology protocol management. In IJCAI: 7th International Joint Conference on Artificial Intelligence, William Kaufmann, 876–881.Google Scholar
Singh, I., Stearns, B., Johnson, M. 2002. Designing Enterprise Applications with the J2EE Platform. Addison-Wesley Longman.Google Scholar
Smirniotopoulos, J. G., Meltzer, C. C. 2001. The new WHO 2000 classification of brain tumors: Imaging correlations. URL http://rad.usuhs.mil/.Google Scholar
Stumpflen, V., Gregory, R., Nenova, K. 2007. From biological data to biological knowledge. In TMRA'06: 2nd International Conference on Topic Maps Research and Applications, Lecture Notes on Artificial Intelligence 4438, 62–66. Springer-Verlag.Google Scholar
Tate, A. R., Underwood, J., Acosta, D. M., Julià-Sapé, M., Majós, C, Moreno-Torres, A., Howe, F. A., van der Graaf, M., Lefournier, V., Murphy, M. M., Loosemore, A., Ladroue, C., Wesseling, P., Bosson, J. L., nas, M. E. C., Simonetti, A. W., Gajewicz, W., Calvar, J., Capdevila, A., Wilkins, P. R., Bell, B. A., Rémy, C., Heerschap, A., Watson, D., Griffiths, J. R., Arús, C. 2006. Development of a decision support system for diagnosis and grading of brain tumours using in vivo magnetic resonance single voxel spectra. NMR in Biomedicine 19(4), 411–434.Google Scholar
Turck, F. D., Decruyenaere, J., Thysebaert, P., Hoecke, S. V., Volckaert, B., Danneels, C., Colpaert, K., Moor, G. D. 2007. Design of a flexible platform for execution of medical decision support agents in the intensive care unit. Computers in Biology and Medicine 37(1), 97–112.Google Scholar
Van Diest, P., Belien, J., Zanstra, P., Wilhelm, W., Baak, J. 2007. Integrated decision support system/image archive for histological typing of breast cancer using a relation oriented inference system. Histopathology 25(3), 253–259.Google Scholar
Xiao, L., Lewis, P., Gibb, A. 2008. Developing a security protocol for a distributed decision support system in a healthcare environment. In ICSE'08: 30th International Conference on Software Engineering, ACM, 673–682.Google Scholar