Integration analysis of single-cell and spatial transcriptomics identifies prognostic genes associated with neddylation in colorectal cancer.

ABSTRACT:

Background

Neddylation modifications in immune and tumor cells are linked to poor tumor prognosis. This study identifies prognostic genes associated with neddylation-related genes (NRGs) in colorectal cancer (CRC) using single-cell and spatial transcriptome (ST) sequencing, aiming to advance CRC treatment strategies.

Methods

Datasets included TCGA-CRC (training/internal validation, 7:3 split), GSE28722 (external validation), GSE132257 (scRNA-seq), and GSE226997 (ST). Single-cell analysis annotated seven cell types, with epithelial cells identified as key. Differentially expressed genes (DEGs) from key cells [DEGs(sc)] and bulk analysis of TCGA-CRC [DEGs(bulk)] were intersected with 247 NRGs to yield candidate genes. Regression analyses screened prognostic genes for risk mode

SUBMITTER: Zhu Z 

PROVIDER: S-EPMC12748437 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature