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Microarray-based bioinformatics analysis of the prospective target gene network of key miRNAs influenced by long non-coding RNA PVT1 in HCC
The long non-coding RNA (lncRNA) PVT1 plays vital roles in the tumorigenesis and development of various types of cancer. However, the potential expression profiling, functions and pathways of PVT1 in HCC remain unknown. PVT1 was knocked down in SMMC-7721 cells, and a miRNA microarray analysis was pe...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
D.A. Spandidos
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6059745/ https://www.ncbi.nlm.nih.gov/pubmed/29749550 http://dx.doi.org/10.3892/or.2018.6410 |
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author | Zhang, Yu Mo, Wei-Jia Wang, Xiao Zhang, Tong-Tong Qin, Yuan Wang, Han-Lin Chen, Gang Wei, Dan-Ming Dang, Yi-Wu |
author_facet | Zhang, Yu Mo, Wei-Jia Wang, Xiao Zhang, Tong-Tong Qin, Yuan Wang, Han-Lin Chen, Gang Wei, Dan-Ming Dang, Yi-Wu |
author_sort | Zhang, Yu |
collection | PubMed |
description | The long non-coding RNA (lncRNA) PVT1 plays vital roles in the tumorigenesis and development of various types of cancer. However, the potential expression profiling, functions and pathways of PVT1 in HCC remain unknown. PVT1 was knocked down in SMMC-7721 cells, and a miRNA microarray analysis was performed to detect the differentially expressed miRNAs. Twelve target prediction algorithms were used to predict the underlying targets of these differentially expressed miRNAs. Bioinformatics analysis was performed to explore the underlying functions, pathways and networks of the targeted genes. Furthermore, the relationship between PVT1 and the clinical parameters in HCC was confirmed based on the original data in the TCGA database. Among the differentially expressed miRNAs, the top two upregulated and downregulated miRNAs were selected for further analysis based on the false discovery rate (FDR), fold-change (FC) and P-values. Based on the TCGA database, PVT1 was obviously highly expressed in HCC, and a statistically higher PVT1 expression was found for sex (male), ethnicity (Asian) and pathological grade (G3+G4) compared to the control groups (P<0.05). Furthermore, Gene Ontology (GO) analysis revealed that the target genes were involved in complex cellular pathways, such as the macromolecule biosynthetic process, compound metabolic process, and transcription. Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis revealed that the MAPK and Wnt signaling pathways may be correlated with the regulation of the four candidate miRNAs. The results therefore provide significant information on the differentially expressed miRNAs associated with PVT1 in HCC, and we hypothesized that PVT1 may play vital roles in HCC by regulating different miRNAs or target gene expression (particularly MAPK8) via the MAPK or Wnt signaling pathways. Thus, further investigation of the molecular mechanism of PVT1 in HCC is needed. |
format | Online Article Text |
id | pubmed-6059745 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | D.A. Spandidos |
record_format | MEDLINE/PubMed |
spelling | pubmed-60597452018-07-26 Microarray-based bioinformatics analysis of the prospective target gene network of key miRNAs influenced by long non-coding RNA PVT1 in HCC Zhang, Yu Mo, Wei-Jia Wang, Xiao Zhang, Tong-Tong Qin, Yuan Wang, Han-Lin Chen, Gang Wei, Dan-Ming Dang, Yi-Wu Oncol Rep Articles The long non-coding RNA (lncRNA) PVT1 plays vital roles in the tumorigenesis and development of various types of cancer. However, the potential expression profiling, functions and pathways of PVT1 in HCC remain unknown. PVT1 was knocked down in SMMC-7721 cells, and a miRNA microarray analysis was performed to detect the differentially expressed miRNAs. Twelve target prediction algorithms were used to predict the underlying targets of these differentially expressed miRNAs. Bioinformatics analysis was performed to explore the underlying functions, pathways and networks of the targeted genes. Furthermore, the relationship between PVT1 and the clinical parameters in HCC was confirmed based on the original data in the TCGA database. Among the differentially expressed miRNAs, the top two upregulated and downregulated miRNAs were selected for further analysis based on the false discovery rate (FDR), fold-change (FC) and P-values. Based on the TCGA database, PVT1 was obviously highly expressed in HCC, and a statistically higher PVT1 expression was found for sex (male), ethnicity (Asian) and pathological grade (G3+G4) compared to the control groups (P<0.05). Furthermore, Gene Ontology (GO) analysis revealed that the target genes were involved in complex cellular pathways, such as the macromolecule biosynthetic process, compound metabolic process, and transcription. Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis revealed that the MAPK and Wnt signaling pathways may be correlated with the regulation of the four candidate miRNAs. The results therefore provide significant information on the differentially expressed miRNAs associated with PVT1 in HCC, and we hypothesized that PVT1 may play vital roles in HCC by regulating different miRNAs or target gene expression (particularly MAPK8) via the MAPK or Wnt signaling pathways. Thus, further investigation of the molecular mechanism of PVT1 in HCC is needed. D.A. Spandidos 2018-07 2018-05-02 /pmc/articles/PMC6059745/ /pubmed/29749550 http://dx.doi.org/10.3892/or.2018.6410 Text en Copyright: © Zhang et al. This is an open access article distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs License (https://creativecommons.org/licenses/by-nc-nd/4.0/) , which permits use and distribution in any medium, provided the original work is properly cited, the use is non-commercial and no modifications or adaptations are made. |
spellingShingle | Articles Zhang, Yu Mo, Wei-Jia Wang, Xiao Zhang, Tong-Tong Qin, Yuan Wang, Han-Lin Chen, Gang Wei, Dan-Ming Dang, Yi-Wu Microarray-based bioinformatics analysis of the prospective target gene network of key miRNAs influenced by long non-coding RNA PVT1 in HCC |
title | Microarray-based bioinformatics analysis of the prospective target gene network of key miRNAs influenced by long non-coding RNA PVT1 in HCC |
title_full | Microarray-based bioinformatics analysis of the prospective target gene network of key miRNAs influenced by long non-coding RNA PVT1 in HCC |
title_fullStr | Microarray-based bioinformatics analysis of the prospective target gene network of key miRNAs influenced by long non-coding RNA PVT1 in HCC |
title_full_unstemmed | Microarray-based bioinformatics analysis of the prospective target gene network of key miRNAs influenced by long non-coding RNA PVT1 in HCC |
title_short | Microarray-based bioinformatics analysis of the prospective target gene network of key miRNAs influenced by long non-coding RNA PVT1 in HCC |
title_sort | microarray-based bioinformatics analysis of the prospective target gene network of key mirnas influenced by long non-coding rna pvt1 in hcc |
topic | Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6059745/ https://www.ncbi.nlm.nih.gov/pubmed/29749550 http://dx.doi.org/10.3892/or.2018.6410 |
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