The IFN-γ-related long non-coding RNA signature predicts prognosis and indicates immune microenvironment infiltration in uterine corpus endometrial carcinoma

Abstract

BackgroundOne of the most common diseases that have a negative impact on women’s health is endometrial carcinoma (EC). Advanced endometrial cancer has a dismal prognosis and lacks solid prognostic indicators. IFN-γ is a key cytokine in the inflammatory response, and it has also been suggested that it has a role in the tumor microenvironment. The significance of IFN-γ-related genes and long non-coding RNAs in endometrial cancer, however, is unknown.MethodsThe Cancer Genome Atlas (TCGA) database was used to download RNA-seq data from endometrial cancer tissues and normal controls. Genes associated with IFN-γ were retrieved from the gene set enrichment analysis (GSEA) website. Co-expression analysis was performed to find lncRNAs linked to IFN-γ gene. The researchers employed weighted co-expression network analysis (WGCNA) to find lncRNAs that were strongly linked to survival. The prognostic signature was created using univariate Cox regression and least absolute shrinkage and selection operator (LASSO) regression. The training cohort, validation cohort, and entire cohort of endometrial cancer patients were then split into high-risk and low-risk categories. To investigate variations across different risk groups, we used survival analysis, enrichment analysis, and immune microenvironment analysis. The platform for analysis is R software (version X64 3.6.1).ResultsBased on the transcript expression of IFN-γ-related lncRNAs, two distinct subgroups of EC from TCGA cohort were formed, each with different outcomes. Ten IFN-γ-related lncRNAs were used to build a predictive signature using Cox regression analysis and the LASSO regression, including CFAP58, LINC02014, UNQ6494, AC006369.1, NRAV, BMPR1B-DT, AC068134.2, AP002840.2, GS1-594A7.3, and OLMALINC. The high-risk group had a considerably worse outcome (p < 0.05). In the immunological microenvironment, there were also substantial disparities across different risk categories.ConclusionOur findings give a reference for endometrial cancer prognostic type and immunological status assessment, as well as prospective molecular markers for the disease.

Implications of inflammatory cell death-related IFNG and co-expressed RNAs (AC006369.1 and CCR7) in breast carcinoma prognosis, and anti-tumor immunity

“…AC006369.1, and CCR7 were aberrantly expressed in BRCA, and in relation to survival outcomes. Similarly, Gu et al identified AC006369.1 as an IFNG-relevant lncRNA that was connected with prognostic outcomes and the TME in uterine corpus endometrial carcinoma ( Gu et al, 2022 ). Many studies have proven the essential function of CCR7 in BRCA.…”

“…Interferon-γ (IFN-γ) encoded by IFNG gene is the only member of the type II interferon family, which is an essential cytokine generated from activated T cells, natural killer (NK), and NK T cells in the tumor microenvironment (TME) (Dörrie et al, 1999;Wu H. et al, 2022;Wei et al, 2022). Cell death can provide host defense and maintain homeostasis (Niu et al, 2021;Wang Z. et al, 2022). IFN-γ can prime diverse inflammatory cell death mechanisms.…”

Epigenome-wide association study of peripheral immune cell populations in Parkinson’s disease

“…A differentially methylated region with three individually significant probes was identified in monocyte data near the long noncoding RNA LINC03062 , alternative name UNQ6494 , on chromosome 9. This transcript has been linked to immune infiltration in endometrial carcinoma 41 and survival in lung adenocarcinoma 42 , but potential roles in neuroinflammation are unknown. The region is located ~50 kb downstream of its closest coding gene, GADD45G , which has functions related to DNA damage response and cellular stress signaling 43 .…”

Comprehensive analysis of cuproptosis-related long non-coding RNAs in prognosis, immune microenvironment infiltration and chemotherapy response of hepatocellular carcinoma

“…For instance, emerging evidence exhibited that the expression of lncRNA AL365203.2 may predict the prognosis of HCC by regulating immune cell differentiation and function. It has been reported that NRAV was an immune-related lncRNA in several tumor types, [ 47 , 48 ] suggesting a possible association between cuproptosis and immune microenvironment and may represent an oncogene that predicts prognosis. High expression of NRAV was observed in pancreatic ductal adenocarcinoma and myeloma.…”