Transcriptomic and Cellular Content Analysis of Colorectal Cancer by Combining Multiple Independent Cohorts.

ABSTRACT:

Introduction

By linking cellular content and molecular subtypes of colorectal cancer (CRC), we aim to uncover novel features useful for targeted therapy. Our first goal was to evaluate gene expression alterations linked to CRC pathogenesis, and then, we aimed to evaluate the cellular composition differences between normal colon mucosa and tumor and between different colon cancer molecular subtypes.

Methods

We collected microarray and RNA sequencing data of patients with CRC from the Genome Expression Omnibus and The Cancer Genome Atlas. We combined all cases and performed quantile normalization. Genes with a fold change of >2 were further investigated. We used xCell for cellular decomposition and CMScaller for molecular subtyping. For statistical analyses, the Kruskal-Wallis

SUBMITTER: Kothalawala WJ 

PROVIDER: S-EPMC9945259 | biostudies-literature | 2023 Feb

REPOSITORIES: biostudies-literature