A six-microRNA signature can better predict overall survival of patients with esophagus adenocarcinoma
Background The microRNAs (miRNAs) have been validated as prognostic markers in many cancers. Here, we aimed at developing a miRNA-based signature for predicting the prognosis of esophagus adenocarcinoma (EAC). Methods The RNA-sequencing data set of EAC was downloaded from The Cancer Genome Atlas (TC...
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PeerJ Inc.
2019-07-01
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| author | Tian Lan Yunyan Lu Zunqiang Xiao Haibin Xu Junling He Zujian Hu Weimin Mao |
| author_facet | Tian Lan Yunyan Lu Zunqiang Xiao Haibin Xu Junling He Zujian Hu Weimin Mao |
| author_sort | Tian Lan |
| collection | DOAJ |
| description | Background The microRNAs (miRNAs) have been validated as prognostic markers in many cancers. Here, we aimed at developing a miRNA-based signature for predicting the prognosis of esophagus adenocarcinoma (EAC). Methods The RNA-sequencing data set of EAC was downloaded from The Cancer Genome Atlas (TCGA). Eighty-four patients with EAC were classified into a training set and a test set randomly. Using univariate Cox regression analysis and the least absolute shrinkage and selection operator (LASSO), we identified prognostic factors and constructed a prognostic miRNA signature. The accuracy of the signature was evaluated by the receiver operating characteristic (ROC) curve. Result In general, in the training set, six miRNAs (hsa-mir-425, hsa-let-7b, hsa-mir-23a, hsa-mir-3074, hsa-mir-424 and hsa-mir-505) displayed good prognostic power as markers of overall survival for EAC patients. Relative to patients in the low-risk group, those assigned to the high-risk group according to their risk scores of the designed miRNA model displayed reduced overall survival. This 6-miRNA model was validated in test and entire set. The area under curve (AUC) for ROC at 3 years was 0.959, 0.840, and 0.868 in training, test, and entire set, respectively. Molecular functional analysis and pathway enrichment analysis indicated that the target messenger RNAs associated with 6-miRNA signature were closely related to several pathways involved in carcinogenesis, especially cell cycle. Conclusion In summary, a novel 6-miRNA expression-based prognostic signature derived from the EAC data of TCGA was constructed and validated for predicting the prognosis of EAC. |
| first_indexed | 2024-03-09T06:58:46Z |
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| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T06:58:46Z |
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| spelling | doaj.art-12ec3fadf12441c9ba012799a688430d2023-12-03T09:56:08ZengPeerJ Inc.PeerJ2167-83592019-07-017e735310.7717/peerj.7353A six-microRNA signature can better predict overall survival of patients with esophagus adenocarcinomaTian Lan0Yunyan Lu1Zunqiang Xiao2Haibin Xu3Junling He4Zujian Hu5Weimin Mao6The Second Clinical Medical College, Zhejiang Chinese Medical University, Hangzhou, Zhejiang, People’s Republic of ChinaDepartment of Cardiology, Hangzhou Xiaoshan First People’s Hospital, Hangzhou, Zhejiang, People’s Republic of ChinaThe Second Clinical Medical College, Zhejiang Chinese Medical University, Hangzhou, Zhejiang, People’s Republic of ChinaDepartment of Breast Surgery, Hangzhou Hospital of Traditional Chinese Medicine, Hangzhou, Zhejiang, People’s Republic of ChinaDepartment of Breast Surgery, Hangzhou Hospital of Traditional Chinese Medicine, Hangzhou, Zhejiang, People’s Republic of ChinaDepartment of Breast Surgery, Hangzhou Hospital of Traditional Chinese Medicine, Hangzhou, Zhejiang, People’s Republic of ChinaZhejiang Key Laboratory of Diagnosis and Treatment Technology on Thoracic Oncology (Lung and Esophagus), Zhejiang Cancer Hospital, Hangzhou, Zhejiang, People’s Republic of ChinaBackground The microRNAs (miRNAs) have been validated as prognostic markers in many cancers. Here, we aimed at developing a miRNA-based signature for predicting the prognosis of esophagus adenocarcinoma (EAC). Methods The RNA-sequencing data set of EAC was downloaded from The Cancer Genome Atlas (TCGA). Eighty-four patients with EAC were classified into a training set and a test set randomly. Using univariate Cox regression analysis and the least absolute shrinkage and selection operator (LASSO), we identified prognostic factors and constructed a prognostic miRNA signature. The accuracy of the signature was evaluated by the receiver operating characteristic (ROC) curve. Result In general, in the training set, six miRNAs (hsa-mir-425, hsa-let-7b, hsa-mir-23a, hsa-mir-3074, hsa-mir-424 and hsa-mir-505) displayed good prognostic power as markers of overall survival for EAC patients. Relative to patients in the low-risk group, those assigned to the high-risk group according to their risk scores of the designed miRNA model displayed reduced overall survival. This 6-miRNA model was validated in test and entire set. The area under curve (AUC) for ROC at 3 years was 0.959, 0.840, and 0.868 in training, test, and entire set, respectively. Molecular functional analysis and pathway enrichment analysis indicated that the target messenger RNAs associated with 6-miRNA signature were closely related to several pathways involved in carcinogenesis, especially cell cycle. Conclusion In summary, a novel 6-miRNA expression-based prognostic signature derived from the EAC data of TCGA was constructed and validated for predicting the prognosis of EAC.https://peerj.com/articles/7353.pdfEsophagus adenocarcinomaTCGABioinformaticsPrognosis |
| spellingShingle | Tian Lan Yunyan Lu Zunqiang Xiao Haibin Xu Junling He Zujian Hu Weimin Mao A six-microRNA signature can better predict overall survival of patients with esophagus adenocarcinoma PeerJ Esophagus adenocarcinoma TCGA Bioinformatics Prognosis |
| title | A six-microRNA signature can better predict overall survival of patients with esophagus adenocarcinoma |
| title_full | A six-microRNA signature can better predict overall survival of patients with esophagus adenocarcinoma |
| title_fullStr | A six-microRNA signature can better predict overall survival of patients with esophagus adenocarcinoma |
| title_full_unstemmed | A six-microRNA signature can better predict overall survival of patients with esophagus adenocarcinoma |
| title_short | A six-microRNA signature can better predict overall survival of patients with esophagus adenocarcinoma |
| title_sort | six microrna signature can better predict overall survival of patients with esophagus adenocarcinoma |
| topic | Esophagus adenocarcinoma TCGA Bioinformatics Prognosis |
| url | https://peerj.com/articles/7353.pdf |
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