Identification of a LncRNA based CeRNA network signature to establish a prognostic model and explore potential therapeutic targets in gastric cancer

• Published in: Scientific reports Vol. 15; no. 1; pp. 20891 - 15
• Main Authors: An, Yuanqing, Liu, Xiaomeng, Liu, Jin, Wang, Deqiang, Yan, Wenying, Hu, Guang, Xu, Lu, Li, Wei
• Format: Journal Article
• Language: English
• Published: London Nature Publishing Group UK 01.07.2025; Nature Portfolio
• Subjects: 631/67; 692/53; Animals; Biomarkers, Tumor - genetics; Cell Line, Tumor; Female; Gastric cancer; Gene Expression Profiling; Gene Expression Regulation, Neoplastic; Gene Regulatory Networks; Humanities and Social Sciences; Humans; Immunotherapy; LncRNA; Male; MicroRNAs - genetics; Middle Aged; multidisciplinary; Prognosis; Prognostic model; RNA, Competitive Endogenous; RNA, Long Noncoding - genetics; RNA, Messenger - genetics; Science; Science (multidisciplinary); Stomach Neoplasms - genetics; Stomach Neoplasms - mortality; Stomach Neoplasms - pathology; Tumor microenvironment; WGCNA; LncRNA; Prognostic model; Tumor microenvironment; Gastric cancer; WGCNA; Immunotherapy
• ISSN: 2045-2322; 2045-2322
• DOI: 10.1038/s41598-025-05105-x

Numerous studies have demonstrated that long non-coding RNA (lncRNA) play critical roles in regulating physiological processes and contributing to pathological diseases. This study aimed to develop lncRNA-based signatures to predict the prognostic risk of gastric cancer (GC) patients and provide therapeutic guidance. Gene expression profiles and clinical information were obtained from The Cancer Genome Atlas (TCGA) database. Differentially expressed RNAs, including lncRNA, miRNA, and mRNA, in cancerous and adjacent non-cancerous tissues were analyzed using Weighted correlation network analysis (WGCNA) and construction of a lncRNA-miRNA-mRNA competing endogenous RNA (ceRNA) network. Then, a lncRNA-based risk model was constructed by Cox regression and Lasso regression analyses. A ceRNA network comprising 235 lncRNAs, 60 miRNAs, and 52 mRNAs was identified. Based on the expression of five lncRNAs (including AC010333.1, LINC01579, AP000695.2, LINC00922 and AL121772.1) screened from the ceRNA network, a lncRNA-based risk model was developed, which effectively predict the prognosis of GC patients. The expression of AP000695.2 was significantly associated with poor prognosis and higher T stage. The knockdown of AP000695.2 inhibited the growth of GC cells both in vitro and in vivo. Transfection with miR-144-3p and miR-7-5p mimics attenuate the up-regulation of targets genes, including CDH11, COL5A2, COL12A1, and VCAN, which was induced by AP000695.2, suggesting a ceRNA mechanism. Additionally, elevated VCAN expression was correlated with poorer survival and a reduced response to anti-PD-1 immune checkpoint inhibitor treatment of GC. This study established a lncRNA-based risk model for predicting the prognosis of GC patients and identified a ceRNA mechanism involving AP000695.2-miR-144-3p-VCAN, presenting novel biomarkers and therapeutic targets for GC treatment.