The Gene Ontology (GO) has been developed to provide a structured vocabulary for genes description. Conversely, gene functional similarity measures would benefit from a structure tailored to emphasise genes involved in the same biological context. Therefore, such measures often find it difficult to fully exploit the information in the GO. This paper reorganises the GO to emphasise regulative information thus providing a better structure for functional analysis. A gene functional similarity measure exploiting the new structure is proposed. Empirical evidence shows that the new structure correctly captures regulative processes and that it can be used to support the proposed measure.

Restructuring the Gene Ontology to Emphasize Regulative Pathways and to Improve Gene Similarity Queries

VISCONTI, ALESSIA;ESPOSITO, Roberto;CORDERO, Francesca
2011

Abstract

The Gene Ontology (GO) has been developed to provide a structured vocabulary for genes description. Conversely, gene functional similarity measures would benefit from a structure tailored to emphasise genes involved in the same biological context. Therefore, such measures often find it difficult to fully exploit the information in the GO. This paper reorganises the GO to emphasise regulative information thus providing a better structure for functional analysis. A gene functional similarity measure exploiting the new structure is proposed. Empirical evidence shows that the new structure correctly captures regulative processes and that it can be used to support the proposed measure.
4
220
238
http://www.ncbi.nlm.nih.gov/pubmed/21778556
gene ontology
Alessia Visconti; Roberto Esposito; Francesca Cordero
File in questo prodotto:
File Dimensione Formato  
Visconti11Restructuring.pdf

Accesso riservato

Tipo di file: POSTPRINT (VERSIONE FINALE DELL’AUTORE)
Dimensione 1.1 MB
Formato Adobe PDF
1.1 MB Adobe PDF   Visualizza/Apri   Richiedi una copia

I documenti in IRIS sono protetti da copyright e tutti i diritti sono riservati, salvo diversa indicazione.

Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/2318/91432
Citazioni
  • ???jsp.display-item.citation.pmc??? 0
  • Scopus 1
  • ???jsp.display-item.citation.isi??? ND
social impact