A validation and extended description of the Lund taxonomy for urothelial carcinoma using the TCGA cohort.

ABSTRACT: Global gene expression analysis has been a major tool for urothelial carcinoma subtype discovery. This approach has revealed extensive complexity both in intrinsic features of the tumor cells and in the microenvironment. However, global gene expression cannot distinguish between gene expression signals originating from the tumor cells proper and from normal cells in the biopsy. Here, we use a large cohort of advanced urothelial carcinomas for which both gene expression data and extensive immunohistochemistry are available to create a supervised mRNA expression centroid classifier. This classifier identifies the major Lund taxonomy tumor cell phenotypes as defined by IHC. We apply this classifier to the independent TCGA dataset and show excellent associations between identified subtypes and

SUBMITTER: Marzouka NA 

PROVIDER: S-EPMC5829240 | biostudies-literature | 2018 Feb

REPOSITORIES: biostudies-literature