A prognostic signature established based on genes related to tumor microenvironment for patients with hepatocellular carcinoma

TL;DR

This study identifies genes in the tumor microenvironment that help classify and predict outcomes for liver cancer patients.

Contribution

A novel risk score model using TME-related genes improves prognosis prediction for hepatocellular carcinoma.

Findings

HCC patients were classified into three subtypes with varying survival outcomes.

A 13-gene risk score model independently predicted patient prognosis.

The model correlated with immune cell infiltration levels in the tumor microenvironment.

Abstract

Background: Complex cellular signaling network in the tumor microenvironment (TME) could serve as an indicator for the prognostic classification of hepatocellular carcinoma (HCC) patients.

Methods: Univariate Cox regression analysis was performed to screen prognosis-related TME-related genes (TRGs), based on which HCC samples were clustered by running non-negative matrix factorization (NMF) algorithm. Furthermore, the correlation between different molecular HCC subtypes and immune cell infiltration level was analyzed. Finally, a risk score (RS) model was established by LASSO and Cox regression analyses (CRA) using these TRGs. Functional enrichment analysis was performed using gene set enrichment analysis (GSEA).

Results: HCC patients were divided into three molecular subtypes (C1, C2, and C3) based on 704 prognosis-related TRGs. HCC subtype C1 had significantly better OS than C2 and C3. We selected 13 TRGs to construct the RS model. Univariate and multivariate CRA showed that the RS could independently predict patients’ prognosis. A nomogram integrating the RS and clinicopathologic features of the patients was further created. We also validated the reliability of the model according to the area under the receiver operating characteristic (ROC) curve value, concordance index (C-index), and decision curve analysis. The current findings demonstrated that the RS was significantly correlated with CD8+ T cells, monocytic lineage, and myeloid dendritic cells.

Conclusion: This study provided TRGs to help classify patients with HCC and predict their prognoses, contributing to personalized treatments for patients with HCC.

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