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Genome-wide analysis of prognostic-related lncRNAs, miRNAs and mRNAs forming a competing endogenous RNA network in lung squamous cell carcinoma.
J Cancer Res Clin Oncol. 2020 Jul; 146(7):1711-1723.JC

Abstract

PURPOSE

As a type of cancer with the highest morbidity and mortality, lung squamous cell carcinoma (LUSC) has a very poor prognosis. Long-non-coding RNA (lncRNA) has recently attracted attentions because it can play the role of competing endogenous RNA (ceRNA) to inhibit microRNA (miRNA) functions. In this study, we aimed to find prognosis-related lncRNAs, miRNAs and mRNAs and construct a prognosis-related ceRNA network.

METHODS

The original LUSC RNA-sequencing data and miRNA profiles data were downloaded from the cancer genome atlas (TCGA) database. Differentially expressed lncRNAs, miRNAs and mRNAs were then identified between patients with lymph node metastasis and no lymph node metastasis. Univariate Cox regression analysis was performed to find the survival-associated lncRNAs, miRNAs and mRNAs. Subsequently, prognostic-related ceRNA network was established. By multivariate Cox regression analysis, three lncRNA signatures and three mRNA signatures were developed and used for predicting LUSC patients' survival.

RESULTS

A total of 224 lncRNAs, 160 miRNAs, 913 mRNAs were identified between samples with lymph node metastasis and no lymph node metastasis. Univariate Cox regression analysis showed that, among them, 28 lncRNAs, 8 miRNAs, 105 mRNAs were significantly associated with patients' overall survival time. Further pathway and enrichment analysis suggested that these mRNAs were associated with the regulation of transmembrane transport, regulation of blood circulation, plasma lipoprotein particle organization. Then we constructed a survival-related ceRNA network including 9 lncRNAs, 8 miRNAs and 23 mRNAs. Additionally, a multivariate Cox regression analysis demonstrated that three lncRNAs (AL161431.1, LINC02389, APCDD1L.DT) and three mRNAs (KLK6, SLITRK5, CCDC177) had a significant prognostic value. Risk score indicated that lncRNA signature and mRNA signature could independently predict overall survival in LUSC patients.

CONCLUSION

The current study provided a better understanding of the ceRNA network in the progression of LUSC and laid a theoretical foundation for LUSC prognosis.

Authors+Show Affiliations

Department of Blood Transfusion, The Affiliated Hospital of Qingdao University, Qingdao University, Qingdao, China. juqiang88@163.com.School of Public Health, Qingdao University, Qingdao, China.Qingdao International Travel Health Center, Qingdao, China.School of Public Health, Qingdao University, Qingdao, China.School of Public Health, Qingdao University, Qingdao, China.Department of Blood Transfusion, The Affiliated Hospital of Qingdao University, Qingdao University, Qingdao, China.Department of Blood Transfusion, The Affiliated Hospital of Qingdao University, Qingdao University, Qingdao, China.Department of Blood Transfusion, The Affiliated Hospital of Qingdao University, Qingdao University, Qingdao, China.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

32356177

Citation

Ju, Qiang, et al. "Genome-wide Analysis of Prognostic-related lncRNAs, miRNAs and mRNAs Forming a Competing Endogenous RNA Network in Lung Squamous Cell Carcinoma." Journal of Cancer Research and Clinical Oncology, vol. 146, no. 7, 2020, pp. 1711-1723.
Ju Q, Zhao YJ, Ma S, et al. Genome-wide analysis of prognostic-related lncRNAs, miRNAs and mRNAs forming a competing endogenous RNA network in lung squamous cell carcinoma. J Cancer Res Clin Oncol. 2020;146(7):1711-1723.
Ju, Q., Zhao, Y. J., Ma, S., Li, X. M., Zhang, H., Zhang, S. Q., Yang, Y. M., & Yan, S. X. (2020). Genome-wide analysis of prognostic-related lncRNAs, miRNAs and mRNAs forming a competing endogenous RNA network in lung squamous cell carcinoma. Journal of Cancer Research and Clinical Oncology, 146(7), 1711-1723. https://doi.org/10.1007/s00432-020-03224-8
Ju Q, et al. Genome-wide Analysis of Prognostic-related lncRNAs, miRNAs and mRNAs Forming a Competing Endogenous RNA Network in Lung Squamous Cell Carcinoma. J Cancer Res Clin Oncol. 2020;146(7):1711-1723. PubMed PMID: 32356177.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Genome-wide analysis of prognostic-related lncRNAs, miRNAs and mRNAs forming a competing endogenous RNA network in lung squamous cell carcinoma. AU - Ju,Qiang, AU - Zhao,Yan-Jie, AU - Ma,Sai, AU - Li,Xin-Mei, AU - Zhang,Heng, AU - Zhang,Shao-Qiang, AU - Yang,Yuan-Ming, AU - Yan,Song-Xia, Y1 - 2020/04/30/ PY - 2020/03/08/received PY - 2020/04/17/accepted PY - 2020/5/2/pubmed PY - 2020/5/2/medline PY - 2020/5/2/entrez KW - Lung squamous cell carcinoma KW - Prognosis KW - ceRNA network KW - lncRNA KW - mRNA KW - miRNA SP - 1711 EP - 1723 JF - Journal of cancer research and clinical oncology JO - J. Cancer Res. Clin. Oncol. VL - 146 IS - 7 N2 - PURPOSE: As a type of cancer with the highest morbidity and mortality, lung squamous cell carcinoma (LUSC) has a very poor prognosis. Long-non-coding RNA (lncRNA) has recently attracted attentions because it can play the role of competing endogenous RNA (ceRNA) to inhibit microRNA (miRNA) functions. In this study, we aimed to find prognosis-related lncRNAs, miRNAs and mRNAs and construct a prognosis-related ceRNA network. METHODS: The original LUSC RNA-sequencing data and miRNA profiles data were downloaded from the cancer genome atlas (TCGA) database. Differentially expressed lncRNAs, miRNAs and mRNAs were then identified between patients with lymph node metastasis and no lymph node metastasis. Univariate Cox regression analysis was performed to find the survival-associated lncRNAs, miRNAs and mRNAs. Subsequently, prognostic-related ceRNA network was established. By multivariate Cox regression analysis, three lncRNA signatures and three mRNA signatures were developed and used for predicting LUSC patients' survival. RESULTS: A total of 224 lncRNAs, 160 miRNAs, 913 mRNAs were identified between samples with lymph node metastasis and no lymph node metastasis. Univariate Cox regression analysis showed that, among them, 28 lncRNAs, 8 miRNAs, 105 mRNAs were significantly associated with patients' overall survival time. Further pathway and enrichment analysis suggested that these mRNAs were associated with the regulation of transmembrane transport, regulation of blood circulation, plasma lipoprotein particle organization. Then we constructed a survival-related ceRNA network including 9 lncRNAs, 8 miRNAs and 23 mRNAs. Additionally, a multivariate Cox regression analysis demonstrated that three lncRNAs (AL161431.1, LINC02389, APCDD1L.DT) and three mRNAs (KLK6, SLITRK5, CCDC177) had a significant prognostic value. Risk score indicated that lncRNA signature and mRNA signature could independently predict overall survival in LUSC patients. CONCLUSION: The current study provided a better understanding of the ceRNA network in the progression of LUSC and laid a theoretical foundation for LUSC prognosis. SN - 1432-1335 UR - https://www.unboundmedicine.com/medline/citation/32356177/Genome_wide_analysis_of_prognostic_related_lncRNAs_miRNAs_and_mRNAs_forming_a_competing_endogenous_RNA_network_in_lung_squamous_cell_carcinoma_ L2 - https://dx.doi.org/10.1007/s00432-020-03224-8 DB - PRIME DP - Unbound Medicine ER -