Pathway-based personalized analysis of cancer.

ABSTRACT: We introduce Pathifier, an algorithm that infers pathway deregulation scores for each tumor sample on the basis of expression data. This score is determined, in a context-specific manner, for every particular dataset and type of cancer that is being investigated. The algorithm transforms gene-level information into pathway-level information, generating a compact and biologically relevant representation of each sample. We demonstrate the algorithm's performance on three colorectal cancer datasets and two glioblastoma multiforme datasets and show that our multipathway-based representation is reproducible, preserves much of the original information, and allows inference of complex biologically significant information. We discovered several pathways that were significantly associated with surv

SUBMITTER: Drier Y 

PROVIDER: S-EPMC3631698 | biostudies-literature | 2013 Apr

REPOSITORIES: biostudies-literature