Article

Gene-set approach for expression pattern analysis.

Functional Genomics Research Center, KRIBB, 111 Gwahangno, Yuseong-gu, Daejeon 305-806, Korea.
Briefings in Bioinformatics (impact factor: 5.2). 06/2008; 9(3):189-97. DOI:10.1093/bib/bbn001
Source: PubMed

ABSTRACT Recently developed gene set analysis methods evaluate differential expression patterns of gene groups instead of those of individual genes. This approach especially targets gene groups whose constituents show subtle but coordinated expression changes, which might not be detected by the usual individual gene analysis. The approach has been quite successful in deriving new information from expression data, and a number of methods and tools have been developed intensively in recent years. We review those methods and currently available tools, classify them according to the statistical methods employed, and discuss their pros and cons. We also discuss several interesting extensions to the methods.

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Keywords

available tools
 
classify
 
constituents
 
expression data
 
gene groups
 
individual genes
 
interesting extensions
 
new information
 
recent years
 
statistical methods
 
tools
 
usual individual gene analysis
 

Dougu Nam