CASTIN: a system for comprehensive analysis of cancer-stromal interactome.

ABSTRACT:

Background

Cancer microenvironment plays a vital role in cancer development and progression, and cancer-stromal interactions have been recognized as important targets for cancer therapy. However, identifying relevant and druggable cancer-stromal interactions is challenging due to the lack of quantitative methods to analyze whole cancer-stromal interactome.

Results

We present CASTIN (CAncer-STromal INteractome analysis), a novel framework for the evaluation of cancer-stromal interactome from RNA-Seq data using cancer xenograft models. For each ligand-receptor interaction which is derived from curated protein-protein interaction database, CASTIN summarizes gene expression profiles of cancer and stroma into three evaluation indices. These indices provide quantitative evaluation

SUBMITTER: Komura D 

PROVIDER: S-EPMC5103609 | biostudies-literature | 2016 Nov

REPOSITORIES: biostudies-literature