Extensions to gene set enrichment | Zendy

Zhen Jiang | Zendy; Robert Gentleman | Zendy

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Extensions to gene set enrichment

Author(s) -

Zhen Jiang,

Robert Gentleman

Publication year - 2006

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btl599

Subject(s) - set (abstract data type) , computer science , dimension (graph theory) , dimensionality reduction , gene , computational biology , expression (computer science) , data set , covariate , interpretation (philosophy) , data mining , biology , machine learning , artificial intelligence , genetics , mathematics , pure mathematics , programming language

Gene Set Enrichment Analysis (GSEA) has been developed recently to capture changes in the expression of pre-defined sets of genes. We propose number of extensions to GSEA, including the use of different statistics to describe the association between genes and phenotypes of interest. We make use of dimension reduction procedures, such as principle component analysis, to identify gene sets with correlated expression. We also address issues that arise when gene sets overlap.

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