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Seekbio: Retrieval of Spatial Relations for System Biology

Seekbio: Retrieval of Spatial Relations for System Biology

Christophe Jouis, Magali Roux-Rouquié, Jean-Gabriel Ganascia
Copyright: © 2009 |Pages: 12
ISBN13: 9781605662749|ISBN10: 1605662747|ISBN13 Softcover: 9781616925284|EISBN13: 9781605662756
DOI: 10.4018/978-1-60566-274-9.ch019
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MLA

Jouis, Christophe, et al. "Seekbio: Retrieval of Spatial Relations for System Biology." Information Retrieval in Biomedicine: Natural Language Processing for Knowledge Integration, edited by Violaine Prince and Mathieu Roche, IGI Global, 2009, pp. 344-355. https://doi.org/10.4018/978-1-60566-274-9.ch019

APA

Jouis, C., Roux-Rouquié, M., & Ganascia, J. (2009). Seekbio: Retrieval of Spatial Relations for System Biology. In V. Prince & M. Roche (Eds.), Information Retrieval in Biomedicine: Natural Language Processing for Knowledge Integration (pp. 344-355). IGI Global. https://doi.org/10.4018/978-1-60566-274-9.ch019

Chicago

Jouis, Christophe, Magali Roux-Rouquié, and Jean-Gabriel Ganascia. "Seekbio: Retrieval of Spatial Relations for System Biology." In Information Retrieval in Biomedicine: Natural Language Processing for Knowledge Integration, edited by Violaine Prince and Mathieu Roche, 344-355. Hershey, PA: IGI Global, 2009. https://doi.org/10.4018/978-1-60566-274-9.ch019

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Abstract

Identical molecules could play different roles depending of the relations they may have with different partners embedded in different processes, at different time and/or localization. To address such intricate networks that account for the complexity of living systems, systems biology is an emerging field that aims at understanding such dynamic interactions from the knowledge of their components and the relations between these components. Among main issues in system biology, knowledge on entities spatial relations is of importance to assess the topology of biological networks. In this perspective, mining data and texts could afford specific clues. To address this issue we examine the use of contextual exploration method to develop extraction rules that can retrieve information on relations between biological entities in scientific literature. We propose the system Seekbio that could be plugged at Pubmed output as an interface between results of PubMed query and articles selection following spatial relationships requests.

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