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BMCBI
2010

Modelling p-value distributions to improve theme-driven survival analysis of cancer transcriptome datasets

9 years 2 months ago
Modelling p-value distributions to improve theme-driven survival analysis of cancer transcriptome datasets
Background: Theme-driven cancer survival studies address whether the expression signature of genes related to a biological process can predict patient survival time. Although this should ideally be achieved by testing two separate null hypotheses, current methods treat both hypotheses as one. The first test should assess whether a geneset, independent of its composition, is associated with prognosis (frequently done with a survival test). The second test then verifies whether the theme of the geneset is relevant (usually done with an empirical test that compares the geneset of interest with random genesets). Current methods do not test this second null hypothesis because it has been assumed that the distribution of p-values for random genesets (when tested against the first null hypothesis) is uniform. Here we demonstrate that such an assumption is generally incorrect and consequently, such methods may erroneously associate the biology of a particular geneset with cancer prognosis. Re...
Esteban Czwan, Benedikt Brors, David Kipling
Added 08 Dec 2010
Updated 08 Dec 2010
Type Journal
Year 2010
Where BMCBI
Authors Esteban Czwan, Benedikt Brors, David Kipling
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