by Antonio Sanfilippo, Christian Posse, Banu Gopalan, Rick Riensche, Nathaniel Beagley, Bob L. Baddeley, Stephen Tratz, Michelle Gregory
Abstract:
Two approaches have recently emerged where the similarity between two genes or gene products is obtained by comparing Gene Ontology (GO) annotations associated with the genes or gene products. One approach captures GO-based similarity in terms of hierarchical relations within each gene subontology, while the other relies on associative relations across the three gene subontologies. We propose a novel methodology where the two approaches can be merged and enriched by textual evidence extracted from biomedical literature with ensuing benefits in coverage and stronger correlation with sequence-based similarity.
Reference:
Combining hierarchical and associative gene ontology relations with textual evidence in estimating gene and gene product similarity. (Antonio Sanfilippo, Christian Posse, Banu Gopalan, Rick Riensche, Nathaniel Beagley, Bob L. Baddeley, Stephen Tratz, Michelle Gregory), In IEEE transactions on nanobioscience, volume 6, 2007.
Bibtex Entry:
@article{Sanfilippo2007,
abstract = {Two approaches have recently emerged where the similarity between two genes or gene products is obtained by comparing Gene Ontology (GO) annotations associated with the genes or gene products. One approach captures GO-based similarity in terms of hierarchical relations within each gene subontology, while the other relies on associative relations across the three gene subontologies. We propose a novel methodology where the two approaches can be merged and enriched by textual evidence extracted from biomedical literature with ensuing benefits in coverage and stronger correlation with sequence-based similarity.},
author = {Sanfilippo, Antonio and Posse, Christian and Gopalan, Banu and Riensche, Rick and Beagley, Nathaniel and Baddeley, Bob L. and Tratz, Stephen and Gregory, Michelle},
issn = {1536-1241},
journal = {IEEE transactions on nanobioscience},
keywords = {Artificial Intelligence,Databases, Factual,Genes,Genes: genetics,Information Storage and Retrieval,Information Storage and Retrieval: methods,Natural Language Processing,Pattern Recognition, Automated,Pattern Recognition, Automated: methods,Proteins,Proteins: classification,Proteins: metabolism,Publications,SML-LIB-BIBLIO,Vocabulary, Controlled,lang:ENG},
mendeley-tags = {SML-LIB-BIBLIO,lang:ENG},
month = mar,
number = {1},
pages = {51--9},
pmid = {17393850},
title = {{Combining hierarchical and associative gene ontology relations with textual evidence in estimating gene and gene product similarity.}},
url = {http://www.ncbi.nlm.nih.gov/pubmed/17393850},
volume = {6},
year = {2007}
}