Comparative RNA-Seq Analysis of Colon Spheroids and Patient-derived Tissues Identifies Non-Canonical Transcript Isoforms of Protein-Coding Genes Implicated in Colon Carcinogenesis.

ABSTRACT:

Objectives

This study aimed to identify transcript isoforms of protein-coding genes with potential relevance to the malignant transformation of gut mucosa.

Methods

Colon cancer cell lines (HCT116, DLD1, SW620) and immortalized cells derived from healthy gut epithelium (HCEC-1CT) were cultured as spheroids and subjected to RNA sequencing to profile both canonical and non-canonical transcripts. The resulting data were compared with prior bioinformatics study findings that analyzed RNA-seq datasets from 473 patient-derived tumor and 417 non-tumor colon tissue samples.

Results

Among 375 transcripts previously reported as significantly dysregulated in colon (39 up-regulated and 336 down-regulated), 32 transcripts displayed expression patterns in colon cell lines consistent

SUBMITTER: Babic T 

PROVIDER: S-EPMC12647565 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature