Identification of transforming growth factor beta induced (TGFBI) as an immune-related prognostic factor in clear cell renal cell carcinoma (ccRCC)

Du, Guo-Wei; Yan, Xin; Chun-hua, Zhao; Zhang, Ren‐Jie; Tuoheti, Kurerban; Bai, Xiaojie; Wu, Hua-Hui; Liu, Tong-Zu

doi:10.18632/aging.103153

Cited by 22 publications

(18 citation statements)

References 36 publications

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“…TFGBI is an exocrine protein and could promote the malignant phenotypes of BLCA 47,48 . Recent study 49 has identi ed TGFBI as an immune-relevant biomarker for prognosis of clear cell renal cell carcinoma based on multiple datasets, verifying our interesting ndings. In all, combining the literature and the outcomes of our study, we believe PCGF3, FASN, DPYSL2 and TGFBI could serve as important prognostic factors and involve in the process of immune response in BLCA.…”

Section: Discussionsupporting

confidence: 81%

Construction of An Immune-Related CeRNA Network as a Prognostic Signature in Bladder Cancer

Zhou¹,

Tian²,

Yang³

et al. 2020

Preprint

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Background: Immunotherapy has been proved to be effective for bladder cancer (BLCA). However, the molecular network involved in BLCA tumor immune response remains unclear. This study aims to construct an immune-related ceRNA network and to identify the prognostic value. Methods: Based on The Cancer Genome Atlas (TCGA), we used single-sample gene set enrichment analysis (ssGSEA), weighted gene co-expression network analysis (WGCNA) to determine immune-related mRNA, lncRNA and miRNA. Then least absolute shrinkage, and selection operator (LASSO) and Cox regression were performed to identify the mRNAs with high prognostic value, and accordingly, the risk score was calculated. Internal and external validation were performed both in TCGA and GSE13507 with Kaplan-Meier (KM) survival and Receiver Operating Characteristic (ROC) curve analysis. Using the immune-related mRNA, lncRNA and miRNA, a ceRNA network was established via MiRcode, starBase, miRDB, miRTarBase and TargetScan. Besides, we also explore the relationship between the risk score and immune cell infiltration via CIBERSORT algorithm. Results: 5 mRNAs (PCGF3, FASN, DPYSL2, TGFBI and NTF3) were ultimately identified, and KM survival analysis displayed the 5-mRNA risk signature could predict the prognosis of BLCA with high efficacy both in TCGA (p = 1.006e-13) and GSE13507 (p = 7.759e-04). Using miRNA targeting molecular prediction database, an immune-related ceRNA network, including 5 mRNAs, 24 miRNAs and 86 lncRNAs, was constructed. Memory B cells, activated dendritic cells, and regulatory T cells infiltration into tumors were negatively correlated with risk score, while the infiltration levels of macrophages M0, M1 and M2 were positively correlated with risk score. Conclusion: This study helped to better understand the molecular mechanisms of tumor immune response from the view of ceRNA hypothesis, and provided a novel prognostic signature for bladder cancer.

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Section: Discussionsupporting

confidence: 81%

Construction of An Immune-Related CeRNA Network as a Prognostic Signature in Bladder Cancer

Zhou¹,

Tian²,

Yang³

et al. 2020

Preprint

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“…Immune related genes (IRGs) play an important role in tumor immune infiltration as well as tumor progression in ccRCC (19,20) and strongly influence complicate soluble factors secretion, which correlate with therapeutic response and clinical outcome (21). IRGs based prognostic model have been successfully developed for hepatocellular, LTB4R is a receptor of Leukotriene B4 and is expressed mainly in leukocytes like granulocytes, macrophages and eosinophils (26).…”

Section: Discussionmentioning

confidence: 99%

Development and validation of the prognostic value of the immune-related genes in clear cell renal cell carcinoma

Liao¹,

Yao²,

Wei³

et al. 2021

Transl Androl Urol

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“…Previous works have evaluated the potential of immune cells or immune-related long-coding RNAs and mRNA in predicting the prognosis of ccRCC patients. 51 , 52 In this study, we also explored the prognostic value of the DEGs and built a risk model containing eight genes. We found an association between B-Cell Chronic Lymphocytic Leukaemia/Lymphoma-3 ( BCL3 ), a well-known oncogene, and poor survival in ccRCC patients.…”

Section: Discussionmentioning

confidence: 99%

Global Characterization of Immune Infiltration in Clear Cell Renal Cell Carcinoma

Zheng¹,

Wen²,

Cao³

et al. 2021

OTT

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Background: Immunotherapy has revolutionized the treatment of clear cell renal cell carcinoma (ccRCC). However, the therapy is constrained by drug resistance. Therefore, further characterization of immune infiltration in ccRCC is needed to improve its efficacy. Methods: Here, we adopted the CIBERSORT method to analyze the level of 22 immune cells, and analyzed the correlation of immune cells and clinical parameters in ccRCC in The Cancer Genome Atlas. We used consensus clustering to cluster ccRCC and identified differently expressed genes (DEGs) between hot and cold tumors using the "Limma" package, and then performed enrichment analysis of DEGs. Finally, we constructed and validated a Cox regression model using the "survival", "glmnet", and "survivalROC" packages, implemented in R. Results: Regulatory T cells upregulated in tumor tissue increased during tumor progression, and correlated with poor overall survival in ccRCC. Consensus clustering identified four clusters of ccRCC. To elucidate the underlying mechanisms of immune cell infiltration, we subdivided these four clusters into two major types, immune hot and cold, and identified DEGs between them. The results revealed different transcription profiles in the two tumor types, with hot tumors being enriched in immune-related signaling, whereas cold tumors were enriched in extracellular matrix remodeling and the phosphatidylinositol 3-kinase-AKT (PI3K/AKT) pathway. We further identified hub genes and prognosticrelated genes from the DEGs, and constructed a Cox regression model for predicting the overall survival of patients with ccRCC. The areas under the receiver operating characteristics curve for the risk model for the training, testing, and external Zhengzhou validation cohorts were 0.834, 0.733, and 0.812, respectively. Notably, gene sets in the prediction model could also predict the overall survival of patients receiving immunotherapy. Conclusion: These findings provide a comprehensive characterization of immune infiltration in ccRCC, while the constructed model can be used effectively to predict the overall survival of ccRCC patients.

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Identification of transforming growth factor beta induced (TGFBI) as an immune-related prognostic factor in clear cell renal cell carcinoma (ccRCC)

Cited by 22 publications

References 36 publications

Construction of An Immune-Related CeRNA Network as a Prognostic Signature in Bladder Cancer

Construction of An Immune-Related CeRNA Network as a Prognostic Signature in Bladder Cancer

Development and validation of the prognostic value of the immune-related genes in clear cell renal cell carcinoma

Global Characterization of Immune Infiltration in Clear Cell Renal Cell Carcinoma

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