Investigating the dysfunctional pathogenesis of Wilms’ tumor through a multidimensional integration strategy

Chen, Wenbiao; Jia, Zhuang; Gong, Lan; Dai, Yong; Diao, Hongyan

doi:10.21037/atm.2019.03.37

Cited by 7 publications

(5 citation statements)

References 58 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Both methylation and transcriptome data showed that cell cycle and DNA replication-related processes are shared features for BWS-WT and altered-11p15 nonBWS-WT, which is supported by other studies as well [ 72 , 73 ]. We also studied the protein-protein interaction network of the genes in the BWS-WT oncogenesis pathway.…”

Section: Discussionsupporting

confidence: 81%

Cancer predisposition signaling in Beckwith-Wiedemann Syndrome drives Wilms tumor development

Nirgude,

Naveh,

Kavari

et al. 2023

Br J Cancer

View full text Add to dashboard Cite

Background Wilms tumor (WT) exhibits structural and epigenetic changes at chromosome 11p15, which also cause Beckwith-Wiedemann Syndrome (BWS). Children diagnosed with BWS have increased risk for WT. The aim of this study is to identify the molecular signaling signatures in BWS driving these tumors. Methods We performed whole exome sequencing, methylation array analysis, and gene expression analysis on BWS-WT samples. Our data were compared to publicly available nonBWS data. We categorized WT from BWS and nonBWS patients by assessment of 11p15 methylation status and defined 5 groups– control kidney, BWS-nontumor kidney, BWS-WT, normal-11p15 nonBWS-WT, altered-11p15 nonBWS-WT. Results BWS-WT samples showed single nucleotide variants in BCORL1, ASXL1, ATM and AXL but absence of recurrent gene mutations associated with sporadic WT. We defined a narrow methylation range stratifying nonBWS-WT samples. BWS-WT and altered-11p15 nonBWS-WT showed enrichment of common and unique molecular signatures based on global differential methylation and gene expression analysis. CTNNB1 overexpression and broad range of interactions were seen in the BWS-WT interactome study. Conclusion While WT predisposition in BWS is well-established, as are 11p15 alterations in nonBWS-WT, this study focused on stratifying tumor genomics by 11p15 status. Further investigation of our findings may identify novel therapeutic targets in WT oncogenesis.

show abstract

Section: Discussionsupporting

confidence: 81%

Cancer predisposition signaling in Beckwith-Wiedemann Syndrome drives Wilms tumor development

Nirgude,

Naveh,

Kavari

et al. 2023

Br J Cancer

View full text Add to dashboard Cite

show abstract

“…This analysis revealed significant changes in cellular pathways and genes regulated by miRNAs, among which differentially expressed miRNAs regulated genes related to cancer and cancer-related pathways (Figure 3, Table 2). Although our minimal network analysis included the most differentially expressed miRNAs, previous WT studies incorporating bioinformatics network approaches and multidimensional integration strategies have additionally reported increased miR-34a, miR106-3p and miR-335 -5p in the WT [45,46], the expression of which was altered in our WT samples.…”

Section: Discussionmentioning

confidence: 94%

Integrative Transcriptomic Profiling of the Wilms Tumor

Avčin,

Črepinšek,

Jenko Bizjan

et al. 2023

Cancers

View full text Add to dashboard Cite

Our study aimed to identify relevant transcriptomic biomarkers for the Wilms tumor, the most common pediatric kidney cancer, independent of the histological type and stage. Using next-generation sequencing, we analyzed the miRNA profiles of 74 kidney samples, which were divided into two independent groups: fresh frozen tissue and formalin-fixed paraffin-embedded tissue samples. Subsequent mRNA expression profiling and pathway analysis were performed to establish the interplay and potential involvement of miRNAs and mRNA in the Wilms tumor. Comparative analysis, irrespective of post-dissection tissue processing, revealed 41 differentially expressed miRNAs, with 27 miRNAs having decreased expression and 14 miRNAs having increased expression in the Wilms tumor tissue compared to healthy kidney tissue. Among global mRNA transcriptomic profile differences, cross-sectional analysis suggested a limited list of genes potentially regulated by differentially expressed miRNAs in the Wilms tumor. This study identified the comprehensive miRNA and mRNA profile of the Wilms tumor using next-generation sequencing and bioinformatics approach, providing better insights into the pathogenesis of the Wilms tumor. The identified Wilms tumor miRNAs have potential as biomarkers for the diagnosis and treatment of the Wilms tumor, regardless of histological subtype and disease stage.

show abstract

“…Glypican-3, which is specifically expressed in cancers including WT, is being considered as a biomarker for predicting tumor recurrence [ 42 ]. In a study of constructing a DEGs-Transcription Factors-miRNA network to explore WT-related biomolecular markers, and TFs and miRNA were mainly studied, but this study focused on hub genes [ 43 ]. Our study identified new biomarkers associated with WT recurrence, which may be a new research direction in the future.…”

Section: Discussionmentioning

confidence: 99%

Identification of the potential novel biomarkers as susceptibility gene for Wilms tumor

et al. 2021

View full text Add to dashboard Cite

Background Wilms tumor (WT) is the most common malignant renal tumor in children. The aim of this study was to identify potential susceptibility gene of WT for better prognosis. Methods Weighted gene coexpression network analysis is used for the detection of clinically important biomarkers associated with WT. Results In the study, 59 tissue samples from National Cancer Institute were pretreated for constructing gene co-expression network, while 224 samples also downloaded from National Cancer Institute were used for hub gene validation and module preservation analysis. Three modules were found to be highly correlated with WT, and 44 top hub genes were identified in these key modules eventually. In addition, both the module preservation analysis and gene validation showed ideal results based on other dataset with 224 samples. Meanwhile, Functional enrichment analysis showed that genes in module were enriched to sister chromatid cohesion, cell cycle, oocyte meiosis. Conclusion In summary, we established a gene co-expression network to identify 44 hub genes are closely to recurrence and staging of WT, and 6 of these hub genes was closely related to the poor prognosis of patients. Our findings revealed that those hub genes may be used as potential susceptibility gene for clinical diagnosis and prognosis of this tumor.

show abstract

Investigating the dysfunctional pathogenesis of Wilms’ tumor through a multidimensional integration strategy

Cited by 7 publications

References 58 publications

Cancer predisposition signaling in Beckwith-Wiedemann Syndrome drives Wilms tumor development

Cancer predisposition signaling in Beckwith-Wiedemann Syndrome drives Wilms tumor development

Integrative Transcriptomic Profiling of the Wilms Tumor

Identification of the potential novel biomarkers as susceptibility gene for Wilms tumor

Contact Info

Product

Resources

About