Gene set analysis: limitations in popular existing methods and proposed improvements | Zendy

Pashupati P. Mishra | Zendy; Petri Törönen | Zendy; Yrjö Leino | Zendy; Liisa Holm | Zendy

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Gene set analysis: limitations in popular existing methods and proposed improvements

Author(s) -

Pashupati P. Mishra,

Petri Törönen,

Yrjö Leino,

Liisa Holm

Publication year - 2014

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btu374

Subject(s) - permutation (music) , set (abstract data type) , function (biology) , value (mathematics) , computer science , asymptotic analysis , mathematics , statistics , algorithm , biology , genetics , physics , acoustics , programming language

Gene set analysis is the analysis of a set of genes that collectively contribute to a biological process. Most popular gene set analysis methods are based on empirical P-value that requires large number of permutations. Despite numerous gene set analysis methods developed in the past decade, the most popular methods still suffer from serious limitations.

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