Enhancing chemotherapy response prediction via matched colorectal tumor-organoid gene expression analysis and network-based biomarker selection.

ABSTRACT:

Background

Colorectal cancer (CRC) presents significant challenges in chemotherapy response prediction due to its molecular heterogeneity. Current methods often fail to account for the complexity and variability inherent in individual tumors.

Methods

We developed a novel approach using matched CRC tumor and organoid gene expression data. We applied Consensus Weighted Gene Co-expression Network Analysis (WGCNA) across three datasets: CRC tumors, matched organoids, and an independent organoid dataset with IC50 drug response values, to identify key gene modules and hub genes linked to chemotherapy response, particularly 5-fluorouracil (5-FU).

Findings

Our integrative analysis identified significant gene modules and hub genes associated with CRC chemotherapy response. The

SUBMITTER: Zhang W 

PROVIDER: S-EPMC11754497 | biostudies-literature | 2025 Feb

REPOSITORIES: biostudies-literature