Representing and organizing scientific knowledge in biomedical articles with Semantic Web technologies

Marcondes, Henrique Representing and organizing scientific knowledge in biomedical articles with Semantic Web technologies., 2014 . In Workshop on Knowledge Organization and Semantic Web, SEMANTiCS, German ISKO e.V. Leipzig, German, 1st Sept. 2014, Leipzig, German, 1st September. (In Press) [Conference paper]

WarningThere is a more recent version of this item available.
[img]
Preview
Text
KO-SW 2014.pdf

Download (128kB) | Preview

English abstract

Currently, the conventional channel for reporting scientific results is the Web electronic publishing. Despite the advances in electronic publishing scientific articles are still published in paper print formats such as PDFs. The emergence of the Semantic Web and Linked Data environment provides new opportunities for communicating, sharing, and integrating scientific knowledge in digital formats that can overcome the limitations of the current print format, suitable only for reading by people. This paper explores the possibilities of this new environment proposing a semantic model of scholarly electronic articles in biomedical sciences. Thereby the results of scientific research can be published electronically, shared in structured, interlinked formats, enabling their crawling by software agents, facilitating semantic retrieval, knowledge reuse, validation of scientific results, identification of traces of scientific discoveries, new scientific insights, and identification of knowledge contradictions or inconsistencies.

Item type: Conference paper
Keywords: semantic publishing, Semantic Web, knowledge representation, biomedical knowledge, knowledge network, terminological knowledge bases, escience
Subjects: E. Publishing and legal issues. > EB. Printing, electronic publishing, broadcasting.
I. Information treatment for information services > ID. Knowledge representation.
Depositing user: Carlos Marcondes
Date deposited: 25 Sep 2014 09:19
Last modified: 02 Oct 2014 12:32
URI: http://hdl.handle.net/10760/23856

Available Versions of this Item

References

"SEEK" links will first look for possible matches inside E-LIS and query Google Scholar if no results are found.

[1] Renear, A.H. and Palmer C. L.. 2009. Strategic reading, ontologies and the future of scientific publishing, Science 325, 828-832.

[2] Swason , D.R., Smalheiser ,N. R and Torvik , V. I. 2006. Ranking indirect connections in literature based discovery. The role of Medical Subject Headings, JASIST 57 11, 1427–1439.

[3] Miller, D.L. 1947. Explanation Versus Description, Philosophical Review 56, 3 306-312.

[4] Ingetraut Dahlberg. 1995. Conceptual structures and systematization. International Forum on Information and Documentation 20, 3, 9-24.

[5] Hao, L.Y. et al. 2005. Short telomeres, even in the presence of telomerase, limit tissue renewal capacity. Cell 123 1121–1131.

[6] Shampay, J., Szostak, J.W. and Blackburn, E. H. 1984. DNA sequences of telomeres maintained in yeast. Nature 310, 154-157.

[7] Greider, C. W. and Blackburn, E. H. 1985. Identification of a specific telomere terminal transferase activity in Tetrahymena extracts. Cell, 43 405-413.

[8] Skelton, J. 1994. Analysis of the structure of original research papers: an aid to writing original papers for publication. British Journal of General Practice, 44, 455-459.

[9] Nwogu, K. N. 1997. The Medical Research Paper: Structure and Functions. English for Specific Purposes 16, 2, 119-138.

[10] C. H. Marcondes, L. R. Malheiros and L. C. da Costa. 2014. A semantic model for scholarly electronic publishing in Biomedical Sciences. Semantic Web Journal, 5, 4.

[11] Ontology for Experiment Self-Publishing, http://www.w3.org/wiki/HCLS/ScientificPublishingTaskForce.

[12] The citation ontology, CITO, http://speroni.web.cs.unibo.it/cgi-bin/lode/req.py?req=http:/purl.org/spar/cito

[13] Costa, L. C. da. 2010. Um proposta de processo de submissão de artigos científicos à publicações eletrônicas semânticas em Ciências Biomédicas, Tese (doutorado), Programa de Pós-graduação em Ciência da Informação UFF-IBICT. Niterói.

[14] Malheiros, L. R. and Marcondes, C. H. 2013. Identificación de indicios de descubrimientos científicos en artículos biomédicos mediante análisis de contenidos. Revista Española de Documentación Científica 36, 2, abril-junio, doi: http://dx.doi.org/10.3989/redc.2013.2.915.

[15] C.W. Greider and E.H. Blackburn. 1987. The telomere terminal transferase of Tetrahymena is a ribonucleoprotein enzyme with two kinds of primer specificity. Cell 51, 887-898.

[16] Shampay, J., Szostak, J.W. and Blackburn, E. H. 1984. DNA sequences of telomeres maintained in yeast. Nature 310, 154-157.

[17] Greider, C. W. and Blackburn, E. H. 1987. The telomere terminal transferase of Tetrahymena is a ribonucleoprotein enzyme with two kinds of primer specificity. Cell 51, 887-898.

[18] Murray-Rust, P. and Rzepa, H. S. 1999. Chemical Markup, XML and the World Wide Web. I: Basic principles, Journal of Chemical Information and Computer Science 39, 928--942.

[19] Hucka, M., Finney, A., Sauro, H. and Bolouri, H. 2003. System Biology Markup Language (SBML) Level 1: Structures and facilities for basic model definitions.

[20] 38. Murray-Rust, P. and Rzepa, H.S. STMML. 2002. A markup language for scientific, technical and medical publishing, Data Science Journal 1, (2), pp. 128-193.


Actions (login required)

Edit Item Edit Item