Sample-level enrichment analysis unravels shared stress phenotypes among multiple cancer types.

ABSTRACT:

Background

Adaptation to stress signals in the tumor microenvironment is a crucial step towards carcinogenic phenotype. The adaptive alterations attained by cells to withstand different types of insults are collectively referred to as the stress phenotypes of cancers. In this manuscript we explore the interrelation of different stress phenotypes in multiple cancer types and ask if these phenotypes could be used to explain prognostic differences among tumor samples.

Methods

We propose a new approach based on enrichment analysis at the level of samples (sample-level enrichment analysis - SLEA) in expression profiling datasets. Without using a priori phenotypic information about samples, SLEA calculates an enrichment score per sample per gene set using z-test. This score is use

SUBMITTER: Gundem G 

PROVIDER: S-EPMC3446278 | biostudies-literature | 2012 Mar

REPOSITORIES: biostudies-literature