Identification of potential biomarkers associated with immune infiltration in papillary renal cell carcinoma

Deng, Ran; Li, Jianpeng; Zhao, Hong; Zou, Zhirui; Man, Jiangwei; Cao, Jinlong; Yang, Li

doi:10.1002/jcla.24022

Cited by 12 publications

(7 citation statements)

References 38 publications

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“…The results further indicated that KNL1 played an important role in the development of PRAD. Interestingly, these KNL1-related molecules (e.g., BUB1, ASPM, TOP2A) have been implicated in immune infiltration in papillary renal cell carcinoma in another report (Deng et al, 2021).…”

Section: Discussionmentioning

confidence: 94%

High expression of KNL1 in prostate adenocarcinoma is associated with poor prognosis and immune infiltration

Zhang

Ji²,

Wang³

et al. 2023

Front. Genet.

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Prostate adenocarcinoma (PRAD) is a common malignancy with increasing morbidity and mortality. Kinetochore scaffold 1 (KNL1) has been reported to be involved in tumor progression and prognosis in other tumors, but its role in PRAD has not been reported in detail. KNL1 expression analysis, clinicopathological parameters analysis, prognostic correlation analysis, molecular interaction network and functional abdominal muscle analysis and immune infiltration analysis by using multiple online databases and downloaded expression profile. The results suggest that KNL1 is highly expressed in PRAD, which is associated with worse prognosis in PRAD patients. KnL1-related genes are highly enriched in mitotic function, which is considered to be highly related to the development of cancer. Finally, KNL1 expression is associated with a variety of tumor infiltrating immune cells, especially Treg and Th2 cells. In conclusion, our findings provide preliminary evidence that KNL1 may be an independent prognostic predictor of PRAD and is associated with immune infiltration.

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Section: Discussionmentioning

confidence: 94%

High expression of KNL1 in prostate adenocarcinoma is associated with poor prognosis and immune infiltration

Zhang

Ji²,

Wang³

et al. 2023

Front. Genet.

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“…Interestingly, our study revealed TOP2A as the key hub gene in the PBMCs of individuals who received the second dose of COVID-19 mRNA vaccine, indicating a potential similarity between COVID-19 infection (live virus) and vaccination (spike protein of the virus) to some extent. Previous research on TOP2A primarily focused on kidney cancer, where its upregulation was associated with prognosis and considered a potential target for mRNA vaccine development [38][39][40][41][42][43][44][45][46]. TOP2A was upregulated in kidney cancer, could predict the prognosis, and might be a tumor target to guide mRNA vaccine development [40,47].…”

Section: Discussionmentioning

confidence: 99%

“…It has been proposed as a candidate for peptide vaccine therapy in cancers like colorectal carcinoma and breast carcinoma [52,54,55]. In the context of nephropathy, studies on CEP55 have primarily focused on kidney cancer [41,44,[56][57][58][59][60]. Additionally, frameshift variants or deletions of CEP55 have been associated with polycystic kidneys [61,62].…”

Section: Discussionmentioning

confidence: 99%

Molecular Pathogenic Mechanisms of IgA Nephropathy Secondary to COVID-19 mRNA Vaccination

Wang,

Mao,

Zhang

et al. 2024

Kidney Blood Press Res

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Introduction: Accumulating evidence has disclosed that IgA nephropathy (IgAN) could present shortly after the second dose of COVID-19 mRNA vaccine. However, the undying mechanism remains unclear and we aimed to investigate the potential molecular mechanisms. Methods: We downloaded gene expression datasets of COVID-19 mRNA vaccination (GSE201535) and IgAN (GSE104948). Weighted Gene Co-Expression Network Analysis (WGCNA) was performed to identify co-expression modules related to the second dose of COVID-19 mRNA vaccination and IgAN. Differentially expressed genes (DEGs) were screened, and a transcription factor (TF)-miRNA regulatory network and protein-drug interaction were constructed for the shared genes. Results: WGCNA identified one module associated with the second dose of COVID-19 mRNA vaccine and four modules associated with IgAN. Gene Ontology (GO) analyses revealed enrichment of cell cycle-related processes for the COVID-19 mRNA vaccine hub genes and immune effector processes for the IgAN hub genes. We identified 74 DEGs for the second dose of COVID-19 mRNA vaccine and 574 DEGs for IgAN. Intersection analysis with COVID-19 vaccine-related genes led to the identification of two shared genes, TOP2A and CEP55. The TF-miRNA network analysis showed that hsa-miR-144 and ATF1 might regulate the shared hub genes. Conclusions: This study provides insights into the common pathogenesis of COVID-19 mRNA vaccination and IgAN. The identified pivotal genes may offer new directions for further mechanistic studies of IgAN secondary to COVID-19 mRNA vaccination.

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“…However, the immune role of BUB1B in BLCA remains undefined. Furthermore, BUB1B has been associated with immune infiltration in various tumors, such as prostate cancer, papillary renal cell carcinoma, and hepatocellular carcinoma (HCC) ( 30 - 32 ). In our immune infiltration analyses, BUB1B reduced CD8 + T cell, CD4 + T cell, macrophage, neutrophil, and dendritic cell enrichment, which validated the association of BUB1B with immune infiltration in BLCA.…”

Section: Discussionmentioning

confidence: 99%

Identification of hub genes associated with bladder cancer using bioinformatic analyses

Zheng

Zhao

Wang

et al. 2022

Transl Cancer Res TCR

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Background Bladder cancer (BLCA) is the ninth most common cancer worldwide, with high mortality and recurrence rates. Studies have increasingly reported that molecular diagnosis contributes to the early diagnosis and prognostic assessment of diseases. Thus, this study aims to find new biomarkers for the diagnosis and prognosis of BLCA. Methods The microarray datasets GSE147983 and The Cancer Genome Atlas (TCGA)-BLCA mRNA were obtained from the Gene Expression Omnibus (GEO) and TCGA. Differentially expressed genes (DEGs) were screened using the R “Limma” package. The “ClusterProfiler” package was used to conduct Gene Ontology (GO) enrichment analysis and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis of the DEGs. A DEG protein–protein interaction (PPI) network was constructed using the Search Tool for the Retrieval of Interacting Genes (STRING) database and visualized using Cytoscape. The functional module was reanalyzed using Cytoscape’s Molecular Complex Detection (“MCODE”) plugin, and key genes related to BLCA were identified via the “cytoHubba” plugin. Gene Expression Profiling Interactive Analysis 2 (GEPIA2) and the Tumor Immune Estimation Resource (TIMER) were used to verify the correlation between hub gene expression and immunity. A survival analysis of hub genes was performed using the Kaplan–Meier Plotter online tool. Results A total of 355 DEGs were screened out, including 236 upregulated and 119 downregulated DEGs. Some of the GO terms and pathways, such as chromosome separation, cell cycle, and cell senescence, were found to be significantly enriched in the DEGs. The key genes were kinesin family member 11 ( KIF11 ), DLG associated protein 5 ( DLGAP5 ), non-SMC condensin I complex subunit G ( NCAPG ), cell division cycle 20 ( CDC20 ), cyclin B2 ( CCNB2 ), BUB1 mitotic checkpoint serine ( BUB1B ), TPX2 microtubule nucleation factor ( TPX2 ), NUF2 component of NDC80 kinetochore complex ( NUF2 ), kinesin family member 2C ( KIF2C ), and cyclin B1 ( CCNB1 ). Nine of them were immune-related, including KIF11, DLGAP5, NCAPG, CDC20, CCNB2, BUB1B, NUF2, KIF2C , and CCNB1 . Survival analysis showed that the overexpression of BUB1B, CCNB1, CDC20, and DLGAP5 significantly reduced overall survival (OS) in patients with BLCA. Conclusions This study provided a theoretical basis for elucidating the pathogenesis and evaluating the prognosis of BLCA by screening potential biomarkers of BLCA.

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Identification of potential biomarkers associated with immune infiltration in papillary renal cell carcinoma

Cited by 12 publications

References 38 publications

High expression of KNL1 in prostate adenocarcinoma is associated with poor prognosis and immune infiltration

High expression of KNL1 in prostate adenocarcinoma is associated with poor prognosis and immune infiltration

Molecular Pathogenic Mechanisms of IgA Nephropathy Secondary to COVID-19 mRNA Vaccination

Identification of hub genes associated with bladder cancer using bioinformatic analyses

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