Use of Semantic Web Technologies and Multilinguistic Thesauri for Knowledge-Based Access to Biomedical Resources

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Anatoly Gladun 1,* Julia Rogushina 2

1. International Research and Training Centre of Information Technologies and Systems, National Academy of Sciences and Ministry of Education of Ukraine, Kyiv, Ukraine

2. Institute of Software Systems, National Academy of Sciences of Ukraine, Kyiv, Ukraine

* Corresponding author.


Received: 5 Apr. 2011 / Revised: 6 Aug. 2011 / Accepted: 23 Oct. 2011 / Published: 8 Feb. 2012

Index Terms

Ontology, thesauruses, informational retrieval


For more relevant informational retrieval and matching of user request with metadata about biomedical informational recourses it is necessary to formulize the user knowledge about this subject domain. We propose to use the ontologies and associated with them thesauri of the appropriate subject domains for representation of biomedicine knowledge. The algorithms of formation and normalization of the multilinguistic thesauruses, and also methods of their comparison are given in this work.

Cite This Paper

Anatoly Gladun, Julia Rogushina, "Use of Semantic Web Technologies and Multilinguistic Thesauri for Knowledge-Based Access to Biomedical Resources", International Journal of Intelligent Systems and Applications(IJISA), vol.4, no.1, pp.11-20, 2012. DOI:10.5815/ijisa.2012.01.02


[1]Health Care and Life Sciences Interest Group.-

[2]Schroeder, M., Neumann, E.: Semantic web for life sciences. Web Semantics: Science, Services and Agents on the World Wide Web, N.4, 2006, pp. 167-169.

[3]Ruttenberg, A., Clark, T., Bug, W., Samwald, M., Bodenreider, O., Chen, H., Doherty, D., Forsberg, K., Gao, Y., Kashyap, V., Kinoshita, J., Luciano, J., Marshall, M.S., Ogbuji, C, Rees, J., Stephens, S., Wong, G.T., Wu, E., Zaccagnini, D., Hongsermeier, T., Neumann, E., Herman, I., Cheung, K.H.: Advancing translational research with the Semantic Web. BMC Bioinformatics 8, Suppl. 3, S2 (2007).

[4]HCLS Banff 2007 demo.-

[5]Sahoo, S.S., Bodenreider, O., Rutter, J.L., Skinner, K.J., Sheth, A.P.: An ontology-driven semantic mash-up of gene and biological pathway information: Application to the domain of nicotine dependence. Journal of Biomedical Informatics (2008), doi: 10.1016/ j.jbi.2008.1002.1006.

[6]Butte, A.J., Kohane, I.S.: Creation and implications of a phenome-genome network. Nat. Biotechnol. 24, pp. 55-62 (2006).

[7]Chabalier, J., Mosser, J., Burgun, A.: Integrating biological pathways in disease ontologies. Medinfo. 12, pp. 791-795 (2007).

[8]Yildirim, M.A., Goh, K.I., Cusick, M.E., Barabasi, A.L., Vidal, M.: Drug-target network. Nat. Biotechnol. 25, pp. 1119-1126 (2007).


[10]Bodenreider, O.: The Unified Medical Language System (UMLS): integrating biomedical terminology. Nucleic Acids Res. 32, pp. 267-270 (2004).

[11]Garcia-Sanchez F., Fernandez-Breisa J.T, Valencia-Garcia R., Gomez J.M., Martinez-Bejar R. Combining Semantic Web technologies with Multi-Agent Systems for integrated access to biological resources. Journal of Biomedical Informatics (2008), Volume: 41, Issue: 5, pp. 848-859.

[12]B.M. Matthews, K. Miller, M.D. Wilson "A Thesaurus Interchange Format in RDF". –

[13]Horrocks I., Patel-Schneider P.F., van Harmelen F.: From SHIQ and RDF to OWL: The Making of a Web Ontology Language. Journal of Web Semantics 2003, 1, pp.7-26.

[14]Gladun A.J., Rogushina J., "Semantic Search of Internet Information Resources on Base of Ontologies and Multilinguistic Thesauruses" // International Journal «Information Theories and Applications», vol.14, 2006.-P.117-129.

[15]Kleshchev A., Artemjeva I. "A Structure of Domain Ontologies and their Mathematical Models". –

[16]Gladun A.J., Rogushina J., and Shtonda V. "Ontological Approach to Domain Knowledge Representation for Informational Retrieval in Multiagent Systems", in Information Theories and Applications, V.13, N.4, 2006, pp.354-362.

[17]The differences between a vocabulary, taxonomy, thesaurus, ontology, and meta-model. –

[18]Gennari J.H., Musen M.A., Fergerson R.W., Grosso W.E., Crubezy M., Eriksson H., Noy N.F., and Tu S.W. "The Evolution of Protege: An Environment for Knowledge-Based Systems Development" -

[19]Srinivasan, P. (2001) 'MeshMap: A text mining tool for Medline', in Proc AMIA Symp, pp. 642-646.

[20]Perez-Iratxeta, C., Pérez, A., Bork, P. and Andrade, M. (2003) 'Update on XplorMed: A web server for exploring scientific literature', Nucleic Acids Res, Vol. 31 (13), pp. 3866-3868.

[21]Fisk, J., Mutalik, P., Levin, F., Er-dos, J., Taylor, C. and Nadkarni, P. (2003) 'Integrating query of relational and textual data in clinical databases: A case study', J Am Med Inform Assoc, Vol. 10 (1), pp. 21-38.

[22]Suarez, H., Hao, X. and Chang, I. (1997) 'Searching for information on the internet using the UMLS and medical world search', in 'Proc 1997 Annual AMIA Fall Symposium', Masys, D., Ed., pp. 824-828.

[23]Müller, H., Kenny, E. and Sternberg, P. (2004) 'Textpresso: An ontology-based information retrieval and extraction system for biological literature', PLoS Biol, Vol. 2 (11), pp. e309.

[24]Intelligent IRS system MAIPS.-

[25]Gladun A.J., Rogushina J., Garcia-Sanchez F., Martinez-Bejar R. and Fernandez-Breis J.T. “An Application of Intelligent Techniques and Semantic Web Technologies in e-Learning Environments”// Journal of Expert Systems with Applications, ELSEVIER, 2008. - Vol.23.-pp. 72-83.

[26]Gladun A.J., Rogushina J., “Mereological aspects of ontological analysis for thesauri constructing” // in Book “Building and Environment”, 2009 Nova Scientific Publishing, pp.198-212. - (

[27]Gladun A.J., Rogushina J. “Knowledge Management in the Clinical Multiagent E-learning Systems”//Proceedings of Intern. Conf. "Advanced Information and Telemedicine Technologies for Health” , AITTH’2005, Minsk, Belarus, 2005.- P.212-225