GRAPE: a pathway template method to characterize tissue-specific functionality from gene expression profiles.

ABSTRACT:

Background

Personalizing treatment regimes based on gene expression profiles of individual tumors will facilitate management of cancer. Although many methods have been developed to identify pathways perturbed in tumors, the results are often not generalizable across independent datasets due to the presence of platform/batch effects. There is a need to develop methods that are robust to platform/batch effects and able to identify perturbed pathways in individual samples.

Results

We present Gene-Ranking Analysis of Pathway Expression (GRAPE) as a novel method to identify abnormal pathways in individual samples that is robust to platform/batch effects in gene expression profiles generated by multiple platforms. GRAPE first defines a template consisting of an ordered set of path

SUBMITTER: Klein MI 

PROVIDER: S-EPMC5485588 | biostudies-literature | 2017 Jun

REPOSITORIES: biostudies-literature