Long noncoding RNAs predict the survival of patients with colorectal cancer as revealed by constructing an endogenous RNA network using bioinformation analysis
Abstract Long noncoding RNAs (lncRNAs) are aberrantly expressed in various cancers types and can function as competing endogenous RNAs (ceRNAs), which promote and maintain tumor initiation and progression. In this study, we explored the functional roles and regulatory mechanisms of lncRNAs as ceRNAs...
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| Format: | Article |
| Language: | English |
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Wiley
2019-03-01
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| Series: | Cancer Medicine |
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| Online Access: | https://doi.org/10.1002/cam4.1813 |
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| author | Hui Zhang Zhuo Wang Jianzhong Wu Rong Ma Jifeng Feng |
| author_facet | Hui Zhang Zhuo Wang Jianzhong Wu Rong Ma Jifeng Feng |
| author_sort | Hui Zhang |
| collection | DOAJ |
| description | Abstract Long noncoding RNAs (lncRNAs) are aberrantly expressed in various cancers types and can function as competing endogenous RNAs (ceRNAs), which promote and maintain tumor initiation and progression. In this study, we explored the functional roles and regulatory mechanisms of lncRNAs as ceRNAs in colorectal cancer and their clinical potential as biomarkers. The RNA sequencing profiles of patients with colorectal cancer were downloaded from TCGA database, and 62 lncRNAs, 30miRNAs, and 59 mRNAs were identified to comprise the ceRNA network (fold change > 2, P < 0.01). Functional enrichment analysis suggested that the target genes of the ceRNA network may be involved in the pathways related to cancer, including the signaling pathway that regulates the pluripotency of stem cells, wnt signaling pathway, hippo signaling pathway, basal cell carcinoma, and colorectal cancer. Univariate and multivariate Cox's proportional hazard regression model revealed that five (H19, MIR31HG, HOTAIR, WT1‐AS, and LINC00488) out of 62 lncRNAs were closely related to the overall survival (OS) (P < 0.05). Furthermore, the five‐lncRNA model could be an independent prognostic model in colorectal cancer. We computed for the risk function and constructed a risk score based on the five lncRNAs. Results showed that patients with high‐risk scores have poor survival rates. Additionally, combing the risk score and other clinicopathological features, we can better predict the patient's survival probabilities. Furthermore, we validate our model in the GSE38832 dataset. Collectively, our study has provided a deeper understanding of the lncRNA‐related ceRNA regulatory mechanism in CRC and identified five‐lncRNA model, which could be considered as candidate prognostic biomarkers and therapeutic targets. |
| format | Article |
| id | doaj-art-0d06a49f68e64391af1f2ce25515ed00 |
| institution | Kabale University |
| issn | 2045-7634 |
| language | English |
| publishDate | 2019-03-01 |
| publisher | Wiley |
| record_format | Article |
| series | Cancer Medicine |
| spelling | doaj-art-0d06a49f68e64391af1f2ce25515ed002025-01-31T08:47:42ZengWileyCancer Medicine2045-76342019-03-018386387310.1002/cam4.1813Long noncoding RNAs predict the survival of patients with colorectal cancer as revealed by constructing an endogenous RNA network using bioinformation analysisHui Zhang0Zhuo Wang1Jianzhong Wu2Rong Ma3Jifeng Feng4The Affiliated Cancer Hospital of Nanjing Medical University, Jiangsu Cancer Hospital Nanjing Jiangsu ChinaThe Affiliated Cancer Hospital of Nanjing Medical University, Jiangsu Cancer Hospital Nanjing Jiangsu ChinaThe Affiliated Cancer Hospital of Nanjing Medical University, Jiangsu Cancer Hospital Nanjing Jiangsu ChinaThe Affiliated Cancer Hospital of Nanjing Medical University, Jiangsu Cancer Hospital Nanjing Jiangsu ChinaThe Affiliated Cancer Hospital of Nanjing Medical University, Jiangsu Cancer Hospital Nanjing Jiangsu ChinaAbstract Long noncoding RNAs (lncRNAs) are aberrantly expressed in various cancers types and can function as competing endogenous RNAs (ceRNAs), which promote and maintain tumor initiation and progression. In this study, we explored the functional roles and regulatory mechanisms of lncRNAs as ceRNAs in colorectal cancer and their clinical potential as biomarkers. The RNA sequencing profiles of patients with colorectal cancer were downloaded from TCGA database, and 62 lncRNAs, 30miRNAs, and 59 mRNAs were identified to comprise the ceRNA network (fold change > 2, P < 0.01). Functional enrichment analysis suggested that the target genes of the ceRNA network may be involved in the pathways related to cancer, including the signaling pathway that regulates the pluripotency of stem cells, wnt signaling pathway, hippo signaling pathway, basal cell carcinoma, and colorectal cancer. Univariate and multivariate Cox's proportional hazard regression model revealed that five (H19, MIR31HG, HOTAIR, WT1‐AS, and LINC00488) out of 62 lncRNAs were closely related to the overall survival (OS) (P < 0.05). Furthermore, the five‐lncRNA model could be an independent prognostic model in colorectal cancer. We computed for the risk function and constructed a risk score based on the five lncRNAs. Results showed that patients with high‐risk scores have poor survival rates. Additionally, combing the risk score and other clinicopathological features, we can better predict the patient's survival probabilities. Furthermore, we validate our model in the GSE38832 dataset. Collectively, our study has provided a deeper understanding of the lncRNA‐related ceRNA regulatory mechanism in CRC and identified five‐lncRNA model, which could be considered as candidate prognostic biomarkers and therapeutic targets.https://doi.org/10.1002/cam4.1813ceRNAcolorectal cancerlncRNAprognostic biomarker |
| spellingShingle | Hui Zhang Zhuo Wang Jianzhong Wu Rong Ma Jifeng Feng Long noncoding RNAs predict the survival of patients with colorectal cancer as revealed by constructing an endogenous RNA network using bioinformation analysis Cancer Medicine ceRNA colorectal cancer lncRNA prognostic biomarker |
| title | Long noncoding RNAs predict the survival of patients with colorectal cancer as revealed by constructing an endogenous RNA network using bioinformation analysis |
| title_full | Long noncoding RNAs predict the survival of patients with colorectal cancer as revealed by constructing an endogenous RNA network using bioinformation analysis |
| title_fullStr | Long noncoding RNAs predict the survival of patients with colorectal cancer as revealed by constructing an endogenous RNA network using bioinformation analysis |
| title_full_unstemmed | Long noncoding RNAs predict the survival of patients with colorectal cancer as revealed by constructing an endogenous RNA network using bioinformation analysis |
| title_short | Long noncoding RNAs predict the survival of patients with colorectal cancer as revealed by constructing an endogenous RNA network using bioinformation analysis |
| title_sort | long noncoding rnas predict the survival of patients with colorectal cancer as revealed by constructing an endogenous rna network using bioinformation analysis |
| topic | ceRNA colorectal cancer lncRNA prognostic biomarker |
| url | https://doi.org/10.1002/cam4.1813 |
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