tailieunhanh - Báo cáo hóa học: " Research Article Combining Evidence, Specificity, and Proximity towards the Normalization of Gene Ontology Terms in Text"

Tuyển tập báo cáo các nghiên cứu khoa học quốc tế ngành hóa học dành cho các bạn yêu hóa học tham khảo đề tài: Research Article Combining Evidence, Specificity, and Proximity towards the Normalization of Gene Ontology Terms in Text | Hindawi Publishing Corporation EURASIP Journal on Bioinformatics and Systems Biology Volume 2008 Article ID 342746 9 pages doi 2008 342746 Research Article Combining Evidence Specificity and Proximity towards the Normalization of Gene Ontology Terms in Text S. Gaudan A. Jimeno Yepes V. Lee and D. Rebholz-Schuhmann European Bioinformatics Institute Cambridge CB10 1SD UK Correspondence should be addressed to S. Gaudan gaudan@ Received 21 November 2007 Accepted 15 February 2008 Recommended by Stephane Robin Structured information provided by manual annotation of proteins with Gene Ontology concepts represents a high-quality reliable data source for the research community. However a limited scope of proteins is annotated due to the amount of human resources required to fully annotate each individual gene product from the literature. We introduce a novel method for automatic identification of GO terms in natural language text. The method takes into consideration several features 1 the evidence for a GO term given by the words occurring in text 2 the proximity between the words and 3 the specificity of the GO terms based on their information content. The method has been evaluated on the BioCreAtIvE corpus and has been compared to current state of the art methods. The precision reached at a recall of for the identified terms at rank 1. In our analysis we observe that the identification of GO terms in the cellular component subbranch of GO is more accurate than for terms from the other two subbranches. This observation is explained by the average number of words forming the terminology over the different subbranches. Copyright 2008 S. Gaudan et al. This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use distribution and reproduction in any medium provided the original work is properly cited. 1. Introduction Gene Ontology GO is a structured database of biological knowledge that .

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