Gene ontology annotation by density and gravitation models.

by: WJ Hou, KH Lin, HH Chen

Genome Inform, Vol. 17, No. 2. (2006), pp. 110-120.

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Abstract

Gene Ontology (GO) is developed to provide standard vocabularies of gene products in different databases. The process of annotating GO terms to genes requires curators to read through lengthy articles. Methods for speeding up or automating the annotation process are thus of great importance. We propose a GO annotation approach using full-text biomedical documents for directing more relevant papers to curators. This system explores word density and gravitation relationships between genes and GO terms. Different density and gravitation models are built and several evaluation criteria are employed to assess the effects of the proposed methods.

@article{citeulike:1396218, abstract = {Gene Ontology (GO) is developed to provide standard vocabularies of gene products in different databases. The process of annotating GO terms to genes requires curators to read through lengthy articles. Methods for speeding up or automating the annotation process are thus of great importance. We propose a GO annotation approach using full-text biomedical documents for directing more relevant papers to curators. This system explores word density and gravitation relationships between genes and GO terms. Different density and gravitation models are built and several evaluation criteria are employed to assess the effects of the proposed methods.}, address = {Department of Computer Science and Information Engineering, National Taiwan University, No.1, Sec.4, Roosevelt Road, Taipei, Taiwan 106. wjhou@nlg.csie.ntu.edu.tw}, author = {Hou, W. J. and Lin, K. H. and Chen, H. H. }, citeulike-article-id = {1396218}, issn = {0919-9454}, journal = {Genome Inform}, keywords = {go, mining, nlp, obo, ontology, text}, number = {2}, pages = {110--120}, posted-at = {2007-06-18 09:50:32}, priority = {2}, title = {Gene ontology annotation by density and gravitation models.}, url = {http://view.ncbi.nlm.nih.gov/pubmed/17503384}, volume = {17}, year = {2006} }

RIS record

TY - JOUR ID - citeulike:1396218 L3 - citeulike-article-id:1396218 TI - Gene ontology annotation by density and gravitation models. JF - Genome Inform VL - 17 IS - 2 SP - 110 EP - 120 AD - Department of Computer Science and Information Engineering, National Taiwan University, No.1, Sec.4, Roosevelt Road, Taipei, Taiwan 106. wjhou@nlg.csie.ntu.edu.tw SN - 0919-9454 N2 - Gene Ontology (GO) is developed to provide standard vocabularies of gene products in different databases. The process of annotating GO terms to genes requires curators to read through lengthy articles. Methods for speeding up or automating the annotation process are thus of great importance. We propose a GO annotation approach using full-text biomedical documents for directing more relevant papers to curators. This system explores word density and gravitation relationships between genes and GO terms. Different density and gravitation models are built and several evaluation criteria are employed to assess the effects of the proposed methods. KW - go KW - mining KW - nlp KW - obo KW - ontology KW - text AU - Hou, WJ AU - Lin, KH AU - Chen, HH PY - 2006/// UR - http://view.ncbi.nlm.nih.gov/pubmed/17503384 ER -

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