Single-cell transcriptome analysis reveals the key genes associated with macrophage polarization in liver cancer.

ABSTRACT:

Background

The aim of this study was to reveal the key genes associated with macrophage polarization in liver cancer.

Methods

Data were downloaded from the Gene Expression Omnibus (GEO) and the Cancer Genome Atlas databases (TCGA). R package Seurat 4.0 was used to preprocess the downloaded single-cell sequencing data, principal component analysis, and clustering. R package SingleR was used to annotate cell types and calculate macrophage polarization scores. Spearman correlation analysis was performed to obtain key genes highly correlated with macrophage polarization in liver cancer. The Tumor IMmune Estimation Resource algorithm was used to analyze the correlation between genes and the infiltration level of macrophages. Finally, the prognostic model was constructed based on

SUBMITTER: Ding Z 

PROVIDER: S-EPMC10615477 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature