Identification of Potential Biomarkers of Prognosis-Related Long Non-Coding RNA (lncRNA) in Pediatric Rhabdoid Tumor of the Kidney Based on ceRNA Networks.

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Abstrakt

Tytuł:: Identification of Potential Biomarkers of Prognosis-Related Long Non-Coding RNA (lncRNA) in Pediatric Rhabdoid Tumor of the Kidney Based on ceRNA Networks.
Autorzy:: Wu X; Department of Pediatric Surgery, Affiliated Hospital of Qingdao University, Qingdao, Shandong, China (mainland).
Liu J; Department of Pediatric Surgery, Affiliated Hospital of Qingdao University, Qingdao, Shandong, China (mainland).
Zhu C; Shandong Key Laboratory of Digital Medicine and Computer Assisted Surgery, Qingdao, Shandong, China (mainland).
Ma M; Department of Pediatric Surgery, Affiliated Hospital of Qingdao University, Qingdao, Shandong, China (mainland).
Chen X; Department of Pediatric Surgery, Affiliated Hospital of Qingdao University, Qingdao, Shandong, China (mainland).
Liu Y; Department of Pediatric Surgery, Affiliated Hospital of Qingdao University, Qingdao, Shandong, China (mainland).
Xia N; Shandong Key Laboratory of Digital Medicine and Computer Assisted Surgery, Qingdao, Shandong, China (mainland).
Dong Q; Department of Pediatric Surgery, Affiliated Hospital of Qingdao University, Qingdao, Shandong, China (mainland).; Shandong Key Laboratory of Digital Medicine and Computer Assisted Surgery, Qingdao, Shandong, China (mainland).
Źródło:: Medical science monitor : international medical journal of experimental and clinical research [Med Sci Monit] 2020 Dec 17; Vol. 26, pp. e927725. Date of Electronic Publication: 2020 Dec 17.
Typ publikacji:: Journal Article
Język:: English
Imprint Name(s):: Publication: 2014- : Smithtown, NY : International Scientific Information, Inc.
Original Publication: Warsaw, Poland : Medical Science International
MeSH Terms:: Kaplan-Meier Estimate*
Kidney Neoplasms*/diagnosis
Kidney Neoplasms*/genetics
Rhabdoid Tumor*/diagnosis
Rhabdoid Tumor*/genetics
RNA, Long Noncoding/*analysis
Biomarkers, Tumor/analysis ; Child ; Databases, Genetic ; Humans ; Prognosis ; Proportional Hazards Models ; Repressor Proteins
References:: Oncol Rep. 2020 May;43(5):1606-1618. (PMID: 32323798)
Front Bioeng Biotechnol. 2020 May 28;8:515. (PMID: 32548103)
Nucleic Acids Res. 2015 Jan;43(Database issue):D146-52. (PMID: 25378301)
Exp Cell Res. 2020 Aug 15;393(2):112025. (PMID: 32325080)
Bioinformatics. 2012 Aug 1;28(15):2062-3. (PMID: 22718787)
Nucleic Acids Res. 2018 Jan 4;46(D1):D296-D302. (PMID: 29126174)
Int J Mol Sci. 2020 Apr 21;21(8):. (PMID: 32326163)
Genome Res. 2003 Nov;13(11):2498-504. (PMID: 14597658)
Cell. 2011 Aug 5;146(3):353-8. (PMID: 21802130)
Mol Cells. 2013 Mar;35(3):195-201. (PMID: 23475422)
Oncol Rep. 2008 Mar;19(3):819-23. (PMID: 18288421)
Pediatr Blood Cancer. 2018 Jan;65(1):. (PMID: 28843054)
Acta Pharm Sin B. 2020 Jan;10(1):113-122. (PMID: 31993310)
Cell Mol Biol Lett. 2020 Feb 24;25:8. (PMID: 32123532)
Cancer Cell Int. 2018 Nov 20;18:190. (PMID: 30479569)
Pediatr Blood Cancer. 2011 May;56(5):733-7. (PMID: 21370404)
Sci Rep. 2019 Aug 5;9(1):11344. (PMID: 31383879)
Artif Cells Nanomed Biotechnol. 2019 Dec;47(1):2670-2677. (PMID: 31257923)
Onco Targets Ther. 2019 May 02;12:3349-3360. (PMID: 31118686)
Cancer Discov. 2013 Oct;3(10):1113-21. (PMID: 24072616)
Am J Transl Res. 2019 Jun 15;11(6):3426-3437. (PMID: 31312355)
Cell. 2018 Jan 25;172(3):393-407. (PMID: 29373828)
Clin Cancer Res. 2009 Mar 15;15(6):1923-30. (PMID: 19276269)
Transl Res. 2016 Feb;168:134-145. (PMID: 26551349)
J Cell Physiol. 2020 Apr;235(4):3189-3206. (PMID: 31595495)
Substance Nomenclature:: 0 (Biomarkers, Tumor)
0 (RNA, Long Noncoding)
0 (Repressor Proteins)
0 (long non-coding RNA HNF1A-AS1, human)
0 (long non-coding RNA SNHG6, human)
Entry Date(s):: Date Created: 20201217 Date Completed: 20210104 Latest Revision: 20210104
Update Code:: 20240105
PubMed Central ID:: PMC7754694
DOI:: 10.12659/MSM.927725
PMID:: 33328429
: Czasopismo naukowe

BACKGROUND Long non-coding RNA (lncRNA) can act as competing endogenous RNA (ceRNA) during tumor development. However, no study has elucidated the ceRNA network in pediatric rhabdoid tumor of the kidney (RTK) and its prognostic-related lncRNAs. The goal of the present study was to identify potential biomarkers of prognostic-related lncRNAs. MATERIAL AND METHODS RNA sequencing and clinical data were procured from the TARGET database. The "EdgeR" package was used to obtain differentially expressed lncRNA (DElncRNA), differentially expressed messenger RNAs (DEmRNA), and differentially expressed microRNAs (DEmiRNA). Cytoscape software was used to construct a ceRNA network. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis were conducted on the ceRNA network-related DEmRNA. The Kaplan-Meier method was used for predicting survival with ceRNA network-related DElncRNA. Univariate and multivariate Cox analyses were used to identify prognosis-related lncRNAs in the ceRNA network, and an RTK prognostic signature was constructed. RESULTS We identified 1109 DElncRNAs, 215 DEmiRNAs, and 3436 DEmRNAs; and 107 DElncRNAs, 21 DEmiRNAs, and 74 DEmRNAs were included in the ceRNA regulatory network. GO enrichment analysis and KEGG pathway enrichment indicated that the DEmRNAs were mainly related to the regulation of phospholipase C activity and the MAPK signaling pathway. Survival analysis showed that 9 of 107 DElncRNAs were correlated with prognosis (P<0.05). Univariate and multivariate Cox analysis identified 4 DElncRNAs (HNF1A-AS1, TPTEP1, SNHG6, and ZNF503-AS2) to establish a predictive model and can be used as independent prognostic biomarkers. CONCLUSIONS We constructed a ceRNA network that reveals potential lncRNA biomarkers for pediatric RTK.

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