Gene set enrichment analysis for non-monotone association and multiple experimental categories.

ABSTRACT:

Background

Recently, microarray data analyses using functional pathway information, e.g., gene set enrichment analysis (GSEA) and significance analysis of function and expression (SAFE), have gained recognition as a way to identify biological pathways/processes associated with a phenotypic endpoint. In these analyses, a local statistic is used to assess the association between the expression level of a gene and the value of a phenotypic endpoint. Then these gene-specific local statistics are combined to evaluate association for pre-selected sets of genes. Commonly used local statistics include t-statistics for binary phenotypes and correlation coefficients that assume a linear or monotone relationship between a continuous phenotype and gene expression level. Methods applicable to c

SUBMITTER: Lin R 

PROVIDER: S-EPMC2636811 | biostudies-literature | 2008 Nov

REPOSITORIES: biostudies-literature