Prognostic Signature of Hepatocellular Carcinoma and Analysis of Immune Infiltration Based on m6A-Related lncRNAs

Abstract

The relationship between m6A-related lncRNAs and prognosis in hepatocellular carcinoma (HCC) is not yet clear. We used Lasso regression to establish a prognostic signature based on m6A-related lncRNAs using a training set from TCGA, and then verified the signature efficacy in a test set. Fluorescence quantitative real-time PCR (qPCR), Survival analysis, clinical risk difference analysis, immune-related analysis, and drug-sensitivity analysis were conducted. The results revealed that 1,651 lncRNAs were differentially expressed in HCC tissues, among which, 163 were m6A-related. Univariate analysis showed that 87 lncRNAs were associated with the overall survival. Six differential m6A-related lncRNAs were validated and selected via Lasso regression to construct a prognostic signature which demonstrated a satisfactory predictive efficacy. In the clinically relevant pathologic stage, histologic grade, and T stage, the risk scores obtained based on this signature showed a statistically significant difference. The high- and low-risk groups exhibited a difference in the tumor immune infiltrating cells, immune checkpoint gene expression, and sensitivity to chemotherapy. In summary, the prognostic signature based on the m6A-related lncRNAs can effectively predict the prognosis of patients and might provide a new vista for the chemotherapy and immunotherapy of HCC.

The Pyroptosis-Related Long Noncoding RNA Signature Predicts Prognosis and Indicates Immunotherapeutic Efficiency in Hepatocellular Carcinoma

“…In addition, the predictive accuracy of the risk score was assessed by the time-dependent ROC analysis at 1, 2, and 3 years, with area under the curve (AUC) values of 0.787, 0.761, and 0.739, respectively ( Figure 2H ), Furthermore, the AUC value of OS for the risk score was significantly higher than those for age, sex, tumor stage, tumor pathological grade, and tumor staging ( Figure 2I , Supplementary Figure S3 ). DCA curve and IDI were used to compare the discriminative ability between our model and the previously reported lncRNA prediction model for HCC ( Li et al, 2020 ; Guo et al, 2021a ; Guo et al, 2021b ; Huang et al, 2021b ; Wang et al, 2021b ; Lei et al, 2021 ; Li et al, 2021 ). DCA indicated that our pyroptosis-related lncRNA signature had positive net benefits and superiority compared with the previously reported lncRNA prediction signature for HCC ( Supplementary Figure S4 ).…”

Identification of pyroptosis-related lncRNAs as potential prognostic biomarkers in patients with adenocarcinoma of the esophagogastric junction

“…However, due to lack of dataset of AEG immunotherapy, we could not further explore the correlation between the pyroptosis-related lncRNA risk model and PD-L1/PD-1 blockade therapy. Several studies found that lncRNA risk models have potential value in predicting drug sensitivity [46][47][48]. A recently study [14] also identi ed a six immune-related lncRNA signature has a good predictive effect on the sensitivity of chemotherapy drugs in AEG, such as cisplatin, doxorubicin, gemcitabine, paclitaxel, et al In current study, we used the oncoPredict R package to comprehensively estimate the predictive value of drug sensitivity of the three pyroptosis-related lncRNA risk model.…”

Role of m6A RNA methylation in the development of hepatitis B virus‐associated hepatocellular carcinoma

“…Moreover, YTHDF1 expression is higher in Stage III/IV HCC than in Stage I/II HCC 145 . In addition, m6A‐modified lncRNAs may predict the OS of HCC patients and act as an independent prognostic factor for HCC 146 …”

“…145 In addition, m6A-modified lncRNAs may predict the OS of HCC patients and act as an independent prognostic factor for HCC. 146 However, some issues should be addressed to achieve broad clinical applications of m6A in the diagnosis, treatment, and prognosis of HBV-associated HCC. qPCR amplification and methylated RNA immunoprecipitation sequencing (MeRIP-Seq) are main detection methods for m6A, while both of them have deficiencies.…”