Identification of Biomarkers to Construct a Competing Endogenous RNA Network and Establishment of a Genomic-Clinicopathologic Nomogram to Predict Survival for Children with Rhabdoid Tumors of the Kidney
Joint Authors
Wang, Xiaoqing
Wu, Xiangyu
Li, Tianyou
Cui, Mingyu
Zhu, Lichao
Wang, Gang
Guo, Feng
Source
Issue
Vol. 2020, Issue 2020 (31 Dec. 2020), pp.1-27, 27 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2020-08-27
Country of Publication
Egypt
No. of Pages
27
Main Subjects
Abstract EN
Rhabdoid tumor of the kidney (RTK) is a rare and severely malignant tumor occurring in infancy and early childhood, with the overall outcomes remain poor.
Neither gene regulatory networks nor biomarkers to predict the prognostic outcomes have been elucidated in RTK.
In this study, RNA sequencing data were obtained to identify differentially expressed messenger RNAs (mRNAs), long noncoding RNAs (lncRNAs), and microRNAs (miRNAs) between RTK samples and normal samples.
A total of 4217 mRNAs, 284 lncRNAs, and 286 miRNAs were screened out.
Of those, 103 mRNAs, 80 lncRNAs, and 45 miRNAs were identified for a competing endogenous RNA (ceRNA) regulatory network, in which three significant modules were identified.
A protein-protein interaction (PPI) network was constructed, and the hub-gene cluster consisted of four core genes (EXOSC2, PAK1IP1, WDR43, and POLR1D) was selected.
Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were also performed to analyze the functional characteristics of differentially expressed mRNAs.
Subsequently, among 211 mRNAs, 8 lncRNAs, and 12 miRNAs associated with overall survival (OS) obtained by univariate Cox analysis, 5 mRNAs, 7 lncRNAs, and 7 miRNAs were identified and the risk score formulas were constructed correspondingly using the least absolute shrinkage and selection operator (LASSO) Cox regression model analysis.
The log-rank tests and Kaplan-Meier analyses were performed to confirm the predictive value of the risk scores for OS in RTK patients.
A genomic-clinicopathologic nomogram integrating the stage and risk scores based on RNAs was established and demonstrated high predictive accuracy and clinical value, which was validated through calibration curves, time-dependent receiver operating characteristic (ROC) curve analyses, and decision curve analysis (DCA).
In conclusion, this study not only provided potential insights into the mechanisms underlying RTK, but also presented a practicable tool for predicting the prognosis in children with RTK.
American Psychological Association (APA)
Wang, Xiaoqing& Wu, Xiangyu& Li, Tianyou& Cui, Mingyu& Zhu, Lichao& Wang, Gang…[et al.]. 2020. Identification of Biomarkers to Construct a Competing Endogenous RNA Network and Establishment of a Genomic-Clinicopathologic Nomogram to Predict Survival for Children with Rhabdoid Tumors of the Kidney. BioMed Research International،Vol. 2020, no. 2020, pp.1-27.
https://search.emarefa.net/detail/BIM-1134988
Modern Language Association (MLA)
Wang, Xiaoqing…[et al.]. Identification of Biomarkers to Construct a Competing Endogenous RNA Network and Establishment of a Genomic-Clinicopathologic Nomogram to Predict Survival for Children with Rhabdoid Tumors of the Kidney. BioMed Research International No. 2020 (2020), pp.1-27.
https://search.emarefa.net/detail/BIM-1134988
American Medical Association (AMA)
Wang, Xiaoqing& Wu, Xiangyu& Li, Tianyou& Cui, Mingyu& Zhu, Lichao& Wang, Gang…[et al.]. Identification of Biomarkers to Construct a Competing Endogenous RNA Network and Establishment of a Genomic-Clinicopathologic Nomogram to Predict Survival for Children with Rhabdoid Tumors of the Kidney. BioMed Research International. 2020. Vol. 2020, no. 2020, pp.1-27.
https://search.emarefa.net/detail/BIM-1134988
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1134988