Identification and Validation of an Endoplasmic Reticulum Stress-Related lncRNA Signature for Colon Adenocarcinoma Patients

Abstract

Purpose Endoplasmic reticulum (ER) stress has a significant effect on cancer cells. Increasing numbers of studies indicate that long non-coding RNAs (lncRNAs) promote the development of colon adenocarcinoma (COAD), but the relationship between ER stress-related lncRNAs and the prognosis of COAD remains unclear. The aim of the current study was to construct and validate an ER stress-related lncRNA prognostic signature to predict COAD prognoses. Methods Gene expression data and clinical information from the Cancer Genome Atlas and the Gene Expression Omnibus with COAD were downloaded and analyzed. Cox regression and least absolute shrinkage and selection operator regression were then used to develop an ER stress-related lncRNA signature. COAD patients were then divided into high-risk and low-risk groups based on the median risk score to analyze prognoses. Tumor mutation burdens (TMBs) and the differences in copy number variations (CNVs) between the two groups were also analyzed. Lastly, gene set enrichment analysis (GSEA) was used to explore the enrichment pathways and biological processes associated with differentially expressed genes in the high-risk and low-risk groups, and lncRNA expression in the model was validated via quantitative real-time PCR in colon cancer and paracancerous tissues. Results A signature including 8 ER stress-related lncRNAs was constructed. COAD prognoses were significantly poorer in the high-risk group than in the low-risk group. There were few differences in TMBs and CNVs between the two groups. In GSEA analysis, in the high-risk group highly expressed genes associated with extracellular matrix pathways were significantly enriched. Conclusion The 8-ER stress-related lncRNA derived from the present study is a potential indicator of COAD prognosis.

Endoplasmic reticulum stress related IncRNA signature predicts the prognosis and immune response evaluation of uterine corpus endometrial carcinoma

“…The prognostic value of its use in gynecological tumors has been predominantly unstudied. Several studies have developed lncRNAs associated with ER stress that predict prognosis in cancer patients (11,17,18). In breast cancer patients with high risk of poor outcomes, CAI et al identified nine ERS-associated lncRNAs (11).…”

“…In breast cancer patients with high risk of poor outcomes, CAI et al identified nine ERS-associated lncRNAs (11). According to a previous study, eight ER stress-related lncrnas can be used as prognostic indicators for colorectal adenocarcinoma (17). A Cox regression analysis was performed to determine risk signature in glioma based on six ER stress-related lncRNAs, and LINC00519 silencing inhibited glioma cell migration and invasion (18).…”

A novel machine learning model based on ubiquitin-related gene pairs and clinical features to predict prognosis and treatment effect in colon adenocarcinoma

“…Numerous earlier research reports have constructed risk models that could accurately anticipate the COAD prognosis, and the majority of these models incorporate multiple functional gene sets. For instance, Chen et al developed and validated a COAD predictive risk model using a total of 8 lncRNAs that are associated with endoplasmic reticulum (ER) stress [ 30 ]. Rong H and colleagues discovered a novel genetic signature that is associated with the invasion of COAD.…”

Exploration of an Prognostic Signature Related to Endoplasmic Reticulum Stress in Colorectal Adenocarcinoma and Their Response Targeting Immunotherapy

“…On the other hand, the ER stress-related lncRNA signature was explored based on various bioinformatics methods, revealing that the differential genes in the high-risk group might be associated with extracellular matrix pathways. 12 These findings initially help us to explore the potential complex mechanisms of ERSGs in COAD.…”