The multi-reference contrast method: facilitating set enrichment analysis.
Comput Biol Med
; 42(2): 188-94, 2012 Feb.
Article
en En
| MEDLINE
| ID: mdl-22226646
Set enrichment analysis (SEA) is used to identify enriched biological categories/terms within high-throughput differential expression experiments. This is done by evaluating the proportion of differentially expressed genes against a background reference (BR). However, the choice of the "appropriate" BR is a perplexing problem and results will depend on it. Here, a visualization procedure that integrates results from several BRs and a stability analysis of enriched terms is presented as a tool to aid SEA. The multi-reference contrast method (MRCM) combines results from multiple BRs in a unique picture. The application of the proposed method was illustrated in one proteomic and three microarray experiments. The MRCM facilitates the exploration task involved in ontology analysis on proteomic/genomic experiments, where consensus terms were found to validate main experimental hypothesis. The use of more than one reference may provide new biological insights. The tool automatically highlights non-consensus terms assisting SEA.
Texto completo:
1
Colección:
01-internacional
Base de datos:
MEDLINE
Asunto principal:
Genómica
/
Bases de Datos Genéticas
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Minería de Datos
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Terminología como Asunto
Límite:
Animals
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Humans
Idioma:
En
Revista:
Comput Biol Med
Año:
2012
Tipo del documento:
Article
País de afiliación:
Argentina
Pais de publicación:
Estados Unidos