Identification and Construction of a Long Noncoding RNA Prognostic Risk Model for Stomach Adenocarcinoma Patients

Abstract

Background. Long noncoding RNA-based prognostic biomarkers have demonstrated great potential in the diagnosis and prognosis of cancer patients. However, systematic assessment of a multiple lncRNA-composed prognostic risk model is lacking in stomach adenocarcinoma (STAD). This study is aimed at constructing a lncRNA-based prognostic risk model for STAD patients. Methods. RNA sequencing data and clinical information of STAD patients were retrieved from The Cancer Genome Atlas (TCGA) database. Differentially expressed lncRNAs (DElncRNAs) were identified using the R software. Univariate and multivariate Cox regression analyses were performed to construct a prognostic risk model. The survival analysis, C-index, and receiver operating characteristic (ROC) curve were employed to assess the sensitivity and specificity of the model. The results were verified using the GEPIA online tool and our clinical samples. Pearson correlation coefficient analysis, Gene Ontology (GO), and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment were performed to indicate the potential biological functions of the selected lncRNA. Results. A total of 1917 DElncRNAs were identified from 343 cases of STAD tissues and 30 cases of noncancerous tissues. According to univariate and multivariable Cox regression analyses, four DElncRNAs (AC129507.1, LINC02407, AL022316.1, and AP000695.2) were selected to establish a prognostic risk model. There was a significant difference in the overall survival between high-risk patients and low-risk patients based on this risk model. The C-index of the model was 0.652. The area under the curve (AUC) for the ROC curve was 0.769. GEPIA results confirmed the expression and prognostic significance of AP000695.2 in STAD. Our clinical data confirmed that upregulated expression of AP000695.2 was correlated with the T stage, distant metastasis, and TNM stage in STAD. GO and KEGG analyses demonstrated that AP000695.2 was closely related to the tumorigenesis process. Conclusions. In this study, we constructed a lncRNA-based prognostic risk model for STAD patients. Our study will provide novel insight into the diagnosis and prognosis of STAD patients.

Establishment and Validation of a Ferroptosis-Related Long Non-Coding RNA Signature for Predicting the Prognosis of Stomach Adenocarcinoma

“…Zha et al have confirmed that AP000695.2 was highly expressed in STAD, which was associated with the tumor stage and distant metastasis ( Zha et al, 2021 ). GO and KEGG analyses indicated that AP000695.2 was closely related to the development of tumor ( Zha et al, 2021 ).…”

“…Zha et al have confirmed that AP000695.2 was highly expressed in STAD, which was associated with the tumor stage and distant metastasis ( Zha et al, 2021 ). GO and KEGG analyses indicated that AP000695.2 was closely related to the development of tumor ( Zha et al, 2021 ). AP000695.2 was not only an optimal diagnostic lncRNAs biomarker but also a prognostic lncRNAs biomarker for head and neck squamous cell carcinoma ( Hu et al, 2020 ).…”

Construction of a Prognostic Model for Hypoxia-Related LncRNAs and Prediction of the Immune Landscape in the Digestive System Pan-Cancer

“…Five of the six lncRNAs have been reported in the literature to be significantly associated with the prognosis of digestive malignancies, including LUCAT1 ( 24 – 27 ), ADAMTS9-AS2 ( 28 – 31 ), MIR4435-2HG ( 32 – 34 ), LINC01711 ( 35 ), AP000695.2 ( 36 ), while there are no relevant articles concerning the biological function of AC087521.1. LUCAT1, located on the antisense strand in the q14.3 region of chromosome 5, was first identified in smoking-associated lung cancer.…”

“…In the construction of a prognostic model, Zha et al. ( 36 ) found that AP000695.2, as an oncogenic factor, was positively correlated with the TNM stage and could be an independent prognostic factor for gastric cancer. Therefore, the combined model can be considered as new prognostic biomarkers for further studies.…”

Construction of a prognostic signature of autophagy-related lncRNAs in non-small-cell lung cancer

“…LINC00941 was defined as an optimal diagnostic lncRNA biomarker for HNSCC, GC and LUAD. AP000695.2 was used as one of the indicators for constructing a prognostic model of gastric adenocarcinoma [ 34 ]. NKILA was found to promote tumour immune evasion by sensitizing T cells to activation-induced cell death [ 35 ].…”