Construction and verification of a novel prognostic risk model for kidney renal clear cell carcinoma based on immunity-related genes

Background: Currently, there are no useful biomarkers or prognostic risk markers for the diagnosis of kidney renal clear cell carcinoma (KIRC), although recent research has shown that both, the onset and progression of KIRC, are substantially influenced by immune-associated genes (IAGs).Objective: T...

Full description

Bibliographic Details
Main Authors: Yufeng Liu, Dali Wu, Haiping Chen, Lingfei Yan, Qi Xiang, Qing Li, Tao Wang
Format: Article
Language:English
Published: Frontiers Media S.A. 2023-01-01
Series:Frontiers in Genetics
Subjects:
Online Access:https://www.frontiersin.org/articles/10.3389/fgene.2023.1107294/full
_version_ 1797946974689820672
author Yufeng Liu
Dali Wu
Haiping Chen
Lingfei Yan
Qi Xiang
Qing Li
Tao Wang
author_facet Yufeng Liu
Dali Wu
Haiping Chen
Lingfei Yan
Qi Xiang
Qing Li
Tao Wang
author_sort Yufeng Liu
collection DOAJ
description Background: Currently, there are no useful biomarkers or prognostic risk markers for the diagnosis of kidney renal clear cell carcinoma (KIRC), although recent research has shown that both, the onset and progression of KIRC, are substantially influenced by immune-associated genes (IAGs).Objective: This work aims to create and verify the prognostic value of an immune risk score signature (IRSS) based on IAGs for KIRC using bioinformatics and public databases.Methods: Differentially expressed genes (DEGs) related to the immune systems (IAGs) in KIRC tissues were identified from The Cancer Genome Atlas (TCGA) databases. The DEGs between the tumor and normal tissues were identified using gene ontology (GO) and Kyoto Encyclopaedia of Genes and Genomes (KEGG) enrichment analyses. Furthermore, a prognostic IRSS model was constructed and its prognostic and predictive performance was analyzed using survival analyses and nomograms. Kidney renal papillary cell carcinoma (KIRP) sets were utilized to further validate this model.Results: Six independent immunity-related genes (PAEP, PI3, SAA2, SAA1, IL20RB, and IFI30) correlated with prognosis were identified and used to construct an IRSS model. According to the Kaplan-Meier curve, patients in the high-risk group had significantly poorer prognoses than those of patients in the low-risk group in both, the verification set (p <0.049; HR = 1.84; 95% CI = 1.02–3.32) and the training set (p < 0.001; HR = 3.12, 95% CI = 2.23–4.37). The numbers of regulatory T cells (Tregs) were significantly positively correlated with the six immunity-related genes identified, with correlation coefficients were 0.385, 0.415, 0.399, 0.451, 0.485, and 0.333, respectively (p <0.001).Conclusion: This work investigated the association between immune infiltration, immunity-related gene expression, and severity of KIRC to construct and verify a prognostic risk model for KIRC and KIRP.
first_indexed 2024-04-10T21:19:29Z
format Article
id doaj.art-467657f307ec4e178476679ee78dea3e
institution Directory Open Access Journal
issn 1664-8021
language English
last_indexed 2024-04-10T21:19:29Z
publishDate 2023-01-01
publisher Frontiers Media S.A.
record_format Article
series Frontiers in Genetics
spelling doaj.art-467657f307ec4e178476679ee78dea3e2023-01-20T07:02:04ZengFrontiers Media S.A.Frontiers in Genetics1664-80212023-01-011410.3389/fgene.2023.11072941107294Construction and verification of a novel prognostic risk model for kidney renal clear cell carcinoma based on immunity-related genesYufeng LiuDali WuHaiping ChenLingfei YanQi XiangQing LiTao WangBackground: Currently, there are no useful biomarkers or prognostic risk markers for the diagnosis of kidney renal clear cell carcinoma (KIRC), although recent research has shown that both, the onset and progression of KIRC, are substantially influenced by immune-associated genes (IAGs).Objective: This work aims to create and verify the prognostic value of an immune risk score signature (IRSS) based on IAGs for KIRC using bioinformatics and public databases.Methods: Differentially expressed genes (DEGs) related to the immune systems (IAGs) in KIRC tissues were identified from The Cancer Genome Atlas (TCGA) databases. The DEGs between the tumor and normal tissues were identified using gene ontology (GO) and Kyoto Encyclopaedia of Genes and Genomes (KEGG) enrichment analyses. Furthermore, a prognostic IRSS model was constructed and its prognostic and predictive performance was analyzed using survival analyses and nomograms. Kidney renal papillary cell carcinoma (KIRP) sets were utilized to further validate this model.Results: Six independent immunity-related genes (PAEP, PI3, SAA2, SAA1, IL20RB, and IFI30) correlated with prognosis were identified and used to construct an IRSS model. According to the Kaplan-Meier curve, patients in the high-risk group had significantly poorer prognoses than those of patients in the low-risk group in both, the verification set (p <0.049; HR = 1.84; 95% CI = 1.02–3.32) and the training set (p < 0.001; HR = 3.12, 95% CI = 2.23–4.37). The numbers of regulatory T cells (Tregs) were significantly positively correlated with the six immunity-related genes identified, with correlation coefficients were 0.385, 0.415, 0.399, 0.451, 0.485, and 0.333, respectively (p <0.001).Conclusion: This work investigated the association between immune infiltration, immunity-related gene expression, and severity of KIRC to construct and verify a prognostic risk model for KIRC and KIRP.https://www.frontiersin.org/articles/10.3389/fgene.2023.1107294/fullkidney renal clear cell carcinomarisk modelprognostic biomarkerimmune infiltrationKIRC
spellingShingle Yufeng Liu
Dali Wu
Haiping Chen
Lingfei Yan
Qi Xiang
Qing Li
Tao Wang
Construction and verification of a novel prognostic risk model for kidney renal clear cell carcinoma based on immunity-related genes
Frontiers in Genetics
kidney renal clear cell carcinoma
risk model
prognostic biomarker
immune infiltration
KIRC
title Construction and verification of a novel prognostic risk model for kidney renal clear cell carcinoma based on immunity-related genes
title_full Construction and verification of a novel prognostic risk model for kidney renal clear cell carcinoma based on immunity-related genes
title_fullStr Construction and verification of a novel prognostic risk model for kidney renal clear cell carcinoma based on immunity-related genes
title_full_unstemmed Construction and verification of a novel prognostic risk model for kidney renal clear cell carcinoma based on immunity-related genes
title_short Construction and verification of a novel prognostic risk model for kidney renal clear cell carcinoma based on immunity-related genes
title_sort construction and verification of a novel prognostic risk model for kidney renal clear cell carcinoma based on immunity related genes
topic kidney renal clear cell carcinoma
risk model
prognostic biomarker
immune infiltration
KIRC
url https://www.frontiersin.org/articles/10.3389/fgene.2023.1107294/full
work_keys_str_mv AT yufengliu constructionandverificationofanovelprognosticriskmodelforkidneyrenalclearcellcarcinomabasedonimmunityrelatedgenes
AT daliwu constructionandverificationofanovelprognosticriskmodelforkidneyrenalclearcellcarcinomabasedonimmunityrelatedgenes
AT haipingchen constructionandverificationofanovelprognosticriskmodelforkidneyrenalclearcellcarcinomabasedonimmunityrelatedgenes
AT lingfeiyan constructionandverificationofanovelprognosticriskmodelforkidneyrenalclearcellcarcinomabasedonimmunityrelatedgenes
AT qixiang constructionandverificationofanovelprognosticriskmodelforkidneyrenalclearcellcarcinomabasedonimmunityrelatedgenes
AT qingli constructionandverificationofanovelprognosticriskmodelforkidneyrenalclearcellcarcinomabasedonimmunityrelatedgenes
AT taowang constructionandverificationofanovelprognosticriskmodelforkidneyrenalclearcellcarcinomabasedonimmunityrelatedgenes