Creating a specific domain ontology for supporting R&D in the science-based sector - The case of biosensors

Expert Systems with Applications

Volumn 39, Issue 11, 2012, Pages 9994-10015

  Batzias, Fragiskos A ^a   Siontorou, Christina G ^a  

^a UNIVERSITY OF PIRAEUS   (Greece)

Author keywords

Biosensor; Domain ontology; Engineering knowledge; Meta modeling

Indexed keywords

APPLIED SCIENCE; ASPECT MODEL; CHANGING ENVIRONMENT; COLLABORATIVE MODEL; CONCEPT LEVELS; DESIGN MODELS; DOMAIN KNOWLEDGE; DOMAIN ONTOLOGIES; ENGINEERING KNOWLEDGE; EXPLOITATION AND EXPLORATIONS; FUNCTIONAL LEVELS; HUMAN INTERVENTION; INPUT AND OUTPUTS; KNOWLEDGE CREATIONS; KNOWLEDGE EVOLUTION; MANAGEMENT CHALLENGES; META MODEL; METAMODELING; METHODOLOGICAL FRAMEWORKS; ONTOLOGICAL APPROACH; ONTOLOGICAL REPRESENTATION; ONTOLOGY BUILDING; ONTOLOGY ENGINEERING; PROCESS-DRIVEN; SYSTEMIC MODELING;

BIOSENSORS; KNOWLEDGE MANAGEMENT; ONTOLOGY;

KNOWLEDGE REPRESENTATION;

EID: 84859422662     PISSN: 09574174     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.eswa.2012.01.216     Document Type: Article

References (110)

1. T. Ahuja, I.A. Mir, D. Kumar, and E. Rajesh Biomolecular immobilization on conducting polymers for biosensing applications Biomaterials 28 5 2007 791 805
2. Alasoud, A., Haarslev, V., & Shiri, N. (2005). A hybrid approach for ontology integration. In: Proceedings of the 31st VLDB conference.
3. L.K. Alberts YMIR: A sharable ontology for the formal representation of engineering design knowledge J.S. Gero, E. Tyugu, Proceedings of the IFIP TC5/WG5.2 workshop on formal design methods for CAD 1994 Elsevier New York 3 32
4. A.M. Aude, G.B. Le, S. Michel, and B. Nacera Metadata- and ontology-based semantic web mining T. David, R.J. Wenny, Web semantics and ontology 2006 Idea Group Pub. Hershey, PA 259 295
5. Batzias, F. A. (2006). Data mining/storing/processing in target-oriented knowledge bases performing in the biology-chemistry-electronics intersection - The case of amperometric biosensors. In: Proceedings of the 17th international congress of chemical and process engineering, Report Series No P5.43.
6. A.F. Batzias, and F.A. Batzias A system for support and training of personnel working in the electrochemical treatment of metallic surfaces Computer Aided Chemical Engineering 14 2003 365 370
7. Batzias, A. F. & Batzias, F.A. (2003b). Fuzzy fault tree analysis as a mechanism for technical support to small/medium electroplaters on a quasi online/real-time basis. In: IEEE international conference on industrial technology (Vol. 1, pp. 36-41).
8. A.F. Batzias, and F.A. Batzias Fuzzy fault tree analysis as a means for computer aided technology to small/medium anodizers Computer Aided Chemical Engineering 18 2004 577 582
9. F.A. Batzias, and E.C. Marcoulaki Restructuring the keywords interface to enhance CAPE knowledge acquisition via an intelligent agent Computer Aided Chemical Engineering 10 2002 829 834
10. F. Batzias, and Z. Res Advanced quantitative methods Decision making Vol. 3 2005 Hellenic Open University Patras
11. F.A. Batzias, and C.G. Siontorou Investigating the causes of biosensor SNR decrease by means of fault tree analysis IEEE Transactions on Instrumentation and Measurement 54 4 2005 1395 1406
12. F.A. Batzias, and C.G. Siontorou A knowledge-based approach to environmental biomonitoring Environmental Monitoring and Assessment 123 1-3 2006 167 197
13. F.A. Batzias, and C.G. Siontorou A novel system for environmental monitoring through a cooperative/synergistic scheme between bioindicators and biosensors Journal of Environmental Management 82 2 2007 221 239
14. R. Bergmann, J. Kolodner, and E. Plaza Representation in case-based reasoning Knowledge Engineering Review 20 3 2005 209 213
15. N.P. Blesseos, and A.F. Batzias Knowledge acquisition/transformation to meet5 quality needs of the metallic constructions market M. Virvou, T. Nakamura, Knowledge-based software engineering, proceedings of the eighth joint conference on knowledge-based software engineering 2008 IOS Press Amsterdam 327 336
16. S. Bo, D.X. Li, P. Xuemin, and H. Li Scenario-based knowledge representation in case-based reasoning systems Expert Systems 20 2 2003 92 99
17. C. Brooksbank, G. Cameron, and J. Thorton The European Bioinformatics Institute's data resources: Towards system biology Nucleic Acids Research 33 Database issue 2005 D46 D53
18. S.L. Brown, and K.M. Eisenhardt Product development: Past research; present findings, and future directions Academy of Management Review 20 3 1995 343 378
19. Calvanese, D., Giacomo, G. D., & Lenzerini, M. (2001). A framework for ontology integration. In: Proceedings of the first semantic web working symposium. Springer-Verlag.
20. B. Chandrasekaran, J.R. Josephson, and R.V. Benjamins What are ontologies and why do we need them? IEEE Intelligent Systems 14 1 1999 20 26
21. Cheng, J., Bell, D., & Liu, W. (1997). Learning Bayesian networks from data: An efficient approach based on information theory. In: Proceeding of the sixth ACM international conference on information and knowledge management (pp. 325-331).
22. P.H. Christensen Knowledge management: Perspectives and pitfalls 2003 Copenhagen Business School Press Denmark
23. P. Ciccarese, E. Wu, G. Wong, M. Ocana, J. Kinoshita, and A. Ruttenberg The SWAN biomedical discourse ontology Journal of Biomedical Informatics 41 5 2008 739 751
24. P. Cimiano, J. Völker, and R. Studer Ontologies on demand? - A description of the state-of-the-art, applications, challenges and trends for ontology learning from text Information, Wissenschaft und Praxis 57 6-7 2006 315 320
25. L.C. Clark, and C. Lyons Electrode systems for continuous monitoring in cardiovascular surgery Annals of New York Academic Sciences 102 1962 29 45
26. M.A. Cooper Biosensor profiling of molecular interactions in pharmacology Current Opinion in Pharmacology 3 2003 557 562
27. Corcho, O., Lopez-Cima, A., & Gomez-Perez, A. (2006). The ODESeW 2.0 semantic web application framework. In: Proceedings of WWW 2006 (pp. 1049-1050). New York: ACM Press.
28. M.J. Darlington, and S.J. Culley Investigating ontology development for engineering design support Advanced Engineering Informatics 22 1 2008 112 134
29. F. Davis, and S.P.J. Higson Structured thin films as functional components within biosensors Biosensors and Bioelectronics 21 1 2005 1 20
30. Deen, S. M., & Ponnamperuma, K. (2006). Dynamic ontology integration in a multi-agent environment. In: Proceedings of AINA '06. IEEE Computer Society.
31. R. Dieng-Kuntz, D. Minier, M. Ruzicka, F. Corby, O. Corby, and L. Alamarguy Building and using a medical ontology for knowledge management and cooperative work in a health care network Computers in Biology and Medicine 36 7-8 2006 871 892
32. D. Dougherty Organizing for innovation S.R. Clegg, C. Hardy, W.R. Nord, Handbook of organization studies 1996 Sage London 424 439
33. S. Dutta, B. Wierenga, and A. Dalebout Case-based reasoning systems: From automation to decision-aiding and stimulation IEEE Transactions on Knowledge and Data Engineering 9 6 1997 911 922
34. E. Eloranta, A.-P. Hameri, and M. Lathi Improved project management through improved document management Computers in Industry 45 3 2001 231 243
35. EMEA/CHMP/410869/2006 (2006). Guideline on human cell-based medicinal products. European Medicines Agency.
36. L. Escuder-Gilabert, and M. Peris Review: Highlights in recent applications of electronic tongues in food analysis Analytica Chimica Acta 665 1 2010 15 25
37. Fernandez-Lopez, M., Gomez-Perez, A., & Juristo, N. (1997). Methontology: From ontological art towards ontological engineering. In: Proceedings of the AAAI97 spring symposium series on ontological engineering. Stanford, USA (pp. 33-40).
38. J. Fong, and S.M. Huang Architecture of a universal database: A frame model approach International Journal of Cooperative Information Systems 8 1 1999 47 82
39. P. Fotilas, and A.F. Batzias Knowledge acquisition within a network of industrial laboratories performing quality specification testing M. Virvou, T. Nakamura, Knowledge-based software engineering, proceedings of the eighth joint conference on knowledge-based software engineering 2008 IOS Press Amsterdam 337 346
40. Y. Gao Surface analytical studies of interfaces in organic semiconductor devices Materials Science and Engineering: R: Reports 68 3 2010 39 87
41. G. Gauglitz Sensing shows the way forward - From principles to applications: Report on the seventh european conference on optical chemical sensors and biosensors: Europt(r)ode VII, held in Madrid, Spain, 4-7April 2004 Trends in Analytical Chemistry 23 7 2004 xv xviii
42. J.H. Gennari, M.A. Musen, R.W. Fergerson, W.E. Grosso, M. Crubezy, and H. Eriksson The evolution of Protégé: An environment for knowledge-based systems development International Journal of Human-Computer Studies 58 1 2003 89 123
43. V. Gilsing, and B. Nooteboom Exploration and exploitation in innovation systems: The case of pharmaceutical biotechnology Research Policy 35 1 2006 1 23
44. A. Gomez-Perez, M. Fernandez-Lopez, and O. Corcho Ontological engineering Advanced information and knowledge processing 2004 Springer-Verlag
45. T.R. Gruber A translation approach to portable ontology specifications Knowledge Acquisitions 5 3 1993 199 220
46. T.R. Gruber, and G.R. Olsen An ontology for engineering mathematics J. Doyle, P. Torasso, E. Sandewall, Fourth international conference on principles of knowledge representation and reasoning 1994 Morgan Kaufmann San Francisco, CA 258 269
47. N. Guarino Concepts attributes and arbitrary relations: Some linguistic and ontological criteria for structuring knowledge bases Data & Knowledge Engineering 8 3 1992 249 261
48. A. Guiseppi-Elie Electroconductive hydrogels: Synthesis, characterization and biomedical applications Biomaterials 31 10 2010 2701 2716
49. R. Gupta, and N.K. Chaudhury Entrapment of biomolecules in sol-gel matrix for applications in biosensors: Problems and future prospects Biosensors & Bioelectronics 22 11 2007 2387 2399
50. D. Harel, and B. Rumpe Meaningful modeling: What's the semantics of "Semantics"?" Computer 37 10 2004 64 72
51. T. Hastie, R. Tibshirani, and J. Friedman The elements of statistical learning: Data mining, inference, and prediction 2001 Springer New York
52. Heflin, J. & Hendler, J. (2000). Dynamic ontologies on the web. In: Proceedings of AAAI 2000. AAAI Press.
53. M. Hepp State of the art, business potential, and grand challenges P. de Leenheer, A. de Moor, Y.Y. Sure, Ontology management: Semantic Web, semantic Web services, and business applications 2007 Springer 3 22
54. S. Hinze Bibliographical cartography of an emerging interdisciplinary discipline: The case of bioelectronics Scientometrics 29 3 1994 353 376
55. T.P. Hughes Inventors: The problems they choose, the ideas they have and the inventions they make P. Kelly, M. Kranzbergeds, Technological innovation: A critical review of current knowledge 1979 San Francisco Press, Inc. San Francisco 177
56. J.-A. Johannessen Organisational innovation as part of knowledge management International Journal of Information Management 28 5 2008 403 412
57. J. Kingston Multi-perspective ontologies: Resolving common ontology development problems Expert Systems with Applications 34 1 2008 541 550
58. K. Kotis, G.A. Vouros, and S. Stergiou Towards automatic merging of domain ontologies: The HCONE-merge approach Web Semantics: Science, Services and Agents on the World Wide Web 4 1 2006 60 79
59. D. Küük, Ö. Salor, T. nan, I. adirci, and M. Ermi PQONT: A domain ontology for electrical power quality Advanced Engineering Informatics 24 1 2010 84 95
60. M.J. Larkin, L.A. Kulakov, and C.C.R. Allen Biodegradation by members of the genus Rhodococcus: Biochemistry, physiology, and genetic adaptation Advances in Applied Microbiology 59 2006 1 29
61. D. Leonard-Barton Wellsprings of knowledge: Building and sustaining the sources of innovation 1995 Harvard Business School Press Boston, MA
62. S.-H. Liao, and C.-C. Wu System perspective of knowledge management, organizational learning, and organizational innovation Expert Systems with Applications 37 2 2010 1096 1103
63. Y. Luo A nearest-nodes finite element method with local multivariate Lagrange interpolation Finite Elements in Analysis and Design 44 12-13 2008 797 803
64. J.H.T. Luong, K.B. Male, and J.D. Glennon Biosensor technology: Technology push versus market pull Biotechnology Advances 26 5 2008 492 500
65. T. Makhnevych, Y. Sydorskyy, X. Xin, T. Srikumar, F.J. Vizeacoumar, and S.M. Jeram Global map of SUMO function revealed by protein-protein interaction and genetic networks Molecular Cell 33 1 2009 124 135
66. R. Malhorta Meta-modelling framework: A new approach to manage meta-modelbase and modeling knowledge Knowledge-Based Systems 21 1 2008 6 37
67. R.K. Mendes, R.F. Carvalhal, and L.T. Kubota Effects of different self-assembled monolayers on enzyme immobilization procedures in peroxidase-based biosensor development Journal of Electroanalytical Chemistry 612 2 2008 164 172
68. T. Midgley Jr. From the periodic table to production Industrial and Engineering Chemistry 29 2 1937 239 244
69. J. Morbach, A. Yang, and W. Marquardt OntoCAPE - A large-scale ontology for chemical process engineering Engineering Applications of Artificial Intelligence 20 2 2007 147 161
70. Moreno, A., Riaño, D., Isern, D., Bocio, J., & Sánchez, D. (2004). Agent-based semantic information search on the web. In: Proceedings of the 3rd. int. workshop on practical applications of agents and multi-agent systems (IWPAAMS'04).
71. D.P. Nikolelis, and C.G. Siontorou Flow injection monitoring and analysis of mixtures of simazine, atrazine, and propazine using filter-supported bilayer lipid membranes Electroanalysis 8 10 1996 907 912
72. D.P. Nikolelis, and C.G. Siontorou Hemoglobin modified bilayer lipid membranes (BLMs) biosensor for carbon dioxide detection Bioelectrochemistry and Bioenergetics 42 1 1997 71 75
73. I. Nonaka A dynamic theory of organizational knowledge creation Organization Science 5 1 1994 14 37
74. I. Nonaka, and H. Takeuchi The knowledge-creating company 1995 Oxford University Press New York
75. V. Nováček, L. Laera, S. Handschuh, and B. Davis Infrastructure for dynamic knowledge integration - Automated biomedical ontology extension using textual resources Journal of Biomedical Informatics 41 5 2008 816 828
76. N.F. Noy, and M.A. Musen The PROMPT suite: Interactive tools for ontology merging and mapping International Journal of Human-Computer Studies 59 6 2003 983 1024
77. R. Ogaki, M. Alexander, and P. Kingshott Chemical patterning in biointerface science Materials Today 13 4 2010 22 35
78. W. Pike, and M. Gahegan Beyond ontologies: Towards situated representations of scientific knowledge International Journal of Human-Computer Studies 65 7 2007 659 673
79. P.C.J. Roach, D.K. Ramsden, J. Hughes, and P. Williams Development of a conductimetric biosensor using immobilized Rhodococcus ruber whole cells for the detection and quantification of acrylonitrile Biosensors & Bioelectronics 19 1 2003 73 78
80. K.R. Rogers Recent advances in biosensor techniques for environmental monitoring Analytica Chimica Acta 568 1/2 2006 222 231
81. E. Ron Biosensing environmental pollution Current Opinion in Biotechnology 18 3 2007 252 256
82. C. Rosse, J.L. Mejino, B.R. Modayur, R. Jakobovits, K.P. Hinshaw, and J.F. Brinkley Motivation and organizational principles for anatomical knowledge representation: The digital anatomist symbolic knowledge base Journal of the American Medical Informatics Association 5 1 1998 17 40
83. Sambhoos, K., Temel, M., Pan, F. & Sudit, M. (2008). Level 4 fusion for biosensor location and setting. Proceedings of the 11th international conference on information fusion, IEEE.
84. D. Sánchez, and A. Moreno Creating ontologies from web documents J. Vitrià, P. Radeva, I. Aguiló, Recent advances in artificial intelligence research and development (Proceedings of Set Congrés Catalàd' Intelligncia Artificial 2004 IOS Press Barcelona 11 18
85. F.W. Scheller, U. Wollenberger, A. Warsinke, and F. Lisdat Research and development in biosensors Current Opinion in Biotechnology 12 1 2001 35 40
86. Md.H. Seddiqui, and M. Aono An efficient and scalable algorithm for segmented alignment of ontologies of arbitrary size Web Semantics: Science, Services and Agents on the World Wide Web 7 4 2009 344 356
87. D.A. Seni, and W. Hodges Common grounds and relationships between information technology and philosophy Association for Information Sciences, America's Conference 2 1996 398 400
88. R. Sethi, S. Pant, and A. Sethi Web-based product development systems integration and new product outcomes: A conceptual framework Journal of Product Innovation Management 20 1 2003 37 56
89. C.G. Siontorou, and F.A. Batzias Innovation in biotechnology: Moving from academic research to product development - The case of biosensors Critical Reviews in Biotechnology 30 2 2010 79 98
90. C.G. Siontorou, V.G. Andreou, D.P. Nikolelis, and U.J. Krull Flow injection monitoring of aflatoxin M-1 in cheese using filter-supported bilayer lipid membranes with incorporated DNA Electroanalysis 12 10 2000 747 751
91. C.G. Siontorou, and F.A. Batzias Carbohydrate detection failure analysis via biosensoring IEEE Transactions on Instrumentation and Measurement 57 12 2008 2856 2867
92. C.G. Siontorou, F.A. Batzias, and V. Tsakiri A knowledge-based approach to online fault diagnosis of FET biosensors IEEE Transactions on Instrumentation and Measurement 59 9 2010 2345 2364
93. C.G. Siontorou, and D.P. Nikolelis Cyanide ion minisensor based on methemoglobin incorporated in metal-supported self-assembled bilayer lipid membranes and modified with platelet-activating factor Analytica Chimica Acta 355 2-3 1997 227 234
94. C.G. Siontorou, D.P. Nikolelis, and U.J. Krull Flow injection monitoring and analysis of mixtures of hydrazine compounds using filter-supported bilayer lipid membranes with incorporated DNA Analytical Chemistry 72 1 2000 180 186
95. R. Studer, V.R. Benjamins, and D. Fensel Knowledge engineering: Principles and methods Data & Knowledge Engineering 25 1-2 1998 161 197
96. D.J. Teece Strategies for managing knowledge assets: The role of firm structure and industrial context I. Nonaka, D. Teece, Managing industrial knowledge: Creation, transfer and utilization 2001 Sage Publications London 125 144
97. D.R. Thévenot, K. Toth, R.A. Durst, and G.S. Wilson Electrochemical biosensors: Recommended definition and classification Pure and Applied Chemistry 71 12 1999 2333 2348
98. E. Tuncer, G. Polizos, I. Sauers, D.R. James, A.R. Ellis, and J.M. Messman Polyamide 66 as a cryogenic dielectric Cryogenics 49 9 2009 463 468
99. M. Uschold, and M. Gruninger Ontologies: Principles, methods and applications Knowledge Engineering Review 11 2 1996 93 136
100. V.S. Vaidhyanathan Statistical mechanical theory of electrolyte diffusion inside a charged membrane Journal of Theoretical Biology 8 2 1965 344 356
101. G. van Heijst, A. Shreiber, and B.J. Wielinga Using explicit ontologies in KBS development International Journal of Human-Computer Studies 45 2-3 1997 183 292
102. V. Venkatasubramanian, C. Zhao, G. Joglekar, A. Jain, L. Hailemariam, and P. Suresh Ontological informatics infrastructure for pharmaceutical product development and manufacturing Computers and Chemical Engineering 30 10-12 2006 1482 1496
103. N. Villanueva-Rosales, and M. Dumontier YOWL: An ontology-driven knowledge base for yeast biologists Journal of Biomedical Informatics 41 5 2008 779 789
104. G. Vouros Representing, adapting and reasoning with uncertain, imprecise and vague information Expert Systems with Applications 19 3 2000 167 192
105. H. Weiland, J. Nardiello, S. Zaefferer, S. Cheong, J. Papazian, and D. Raabe Microstructural aspects of crack nucleation during cycling loading of AA7075-T651 Engineering Fracture Mechanics 76 5 2009 709 714
106. R. Wilensky Some problems and proposals for knowledge representation, UCB/CSD Report 87/35I 1987 University of California Berkeley, CA
107. M. Yoshioka, Y. Umeda, H. Takeda, Y. Shimomura, Y. Nomaguchi, and T. Tomiyama Physical concept ontology for the knowledge intensive engineering framework Advanced Engineering Informatics 18 2 2004 95 113
108. M.J. Zhang, and A.A. Lado Information systems and competitive advantage: A competency based view Technovation 21 3 2001 147 156
109. L. Zhou Ontology learning: State of the art and open issues Information Technology Management 8 3 2007 241 252
110. E. Zilkha, T.P. Obrenovitch, A. Koshy, H. Kusakabe, and H.P. Bennett Extracellular glutamate: On-line monitoring using microdialysis coupled to enzyme-amperometric analysis Journal of Neuroscience Methods 60 1-2 1995 1 9