Prediction of the Prognosis Based on Chromosomal Instability-Related DNA Methylation Patterns of ELOVL2 and UBAC2 in PTCs
Papillary thyroid carcinoma (PTC) is the most common malignant tumor of endocrine systems. Chromosomal instability (CIN) is crucial to the clinical prognoses of tumor patients. DNA methylation plays an important role in the regulation of gene expression and CIN. Based on PTC samples from The Cancer...
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doaj-06ac90d5800b4b3b9705c728d74883692020-11-25T00:32:50ZengElsevierMolecular Therapy: Nucleic Acids2162-25312019-12-0118650660Prediction of the Prognosis Based on Chromosomal Instability-Related DNA Methylation Patterns of ELOVL2 and UBAC2 in PTCsJun Han0Meijun Chen1Qingxiao Fang2Yanqing Zhang3Yihan Wang4Jamaspishvili Esma5Hong Qiao6Department of Endocrinology and Metabolism, The Second Affiliated Hospital, Harbin Medical University, The Fourth Affiliated Hospital, Harbin Medical University, Harbin 150001, ChinaDepartment of Endocrinology and Metabolism, The Second Affiliated Hospital, Harbin Medical University, Harbin 150001, ChinaSurgical Oncology, The Second Affiliated Hospital, Harbin Medical University, Harbin 150001, ChinaHematological Department, The Second Affiliated Hospital, Harbin Medical University, Harbin 150001, ChinaCollege of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150001, ChinaDepartment of Endocrinology and Metabolism, The Second Affiliated Hospital, Harbin Medical University, Harbin 150001, ChinaDepartment of Endocrinology and Metabolism, The Second Affiliated Hospital, Harbin Medical University, Harbin 150001, China; Corresponding author: Hong Qiao, Department of Endocrinology and Metabolism, The Second Affiliated Hospital, Harbin Medical University, Harbin 150001, China.Papillary thyroid carcinoma (PTC) is the most common malignant tumor of endocrine systems. Chromosomal instability (CIN) is crucial to the clinical prognoses of tumor patients. DNA methylation plays an important role in the regulation of gene expression and CIN. Based on PTC samples from The Cancer Genome Atlas database, we used multiple regression analyses to identify methylation patterns of CpG sites with the strongest correlation with gene expression. A total of 4,997 genes were obtained through combining the CpG sites, which were represented as featured DNA methylation patterns. In order to identify CIN-related epigenetic markers of PTC survival, we developed a method to characterize CIN based on DNA methylation patterns of genes using the Student’s t statistics. We found that 1,239 genes were highly associated with CIN. With the use of the log-rank test, univariate Cox regression analyses, and the Kaplan-Meier method, DNA methylation patterns of UBAC2 and ELOVL2, highly correlated with CIN, provided potential prognostic values for PTC. The higher these two genes, risk scores were correlated with worse PTC patient prognoses. Moreover, the ELOVL2 risk score was significantly different in the four stages of PTC, suggesting that it was related to the progress of PTC. The DNA methylation pattern associated with CIN may therefore be a good predictor of PTC survival. Keywords: papillary thyroid carcinoma, chromosomal instability, DNA methylation, gene expression, prognosishttp://www.sciencedirect.com/science/article/pii/S2162253119302756 |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Jun Han Meijun Chen Qingxiao Fang Yanqing Zhang Yihan Wang Jamaspishvili Esma Hong Qiao |
spellingShingle |
Jun Han Meijun Chen Qingxiao Fang Yanqing Zhang Yihan Wang Jamaspishvili Esma Hong Qiao Prediction of the Prognosis Based on Chromosomal Instability-Related DNA Methylation Patterns of ELOVL2 and UBAC2 in PTCs Molecular Therapy: Nucleic Acids |
author_facet |
Jun Han Meijun Chen Qingxiao Fang Yanqing Zhang Yihan Wang Jamaspishvili Esma Hong Qiao |
author_sort |
Jun Han |
title |
Prediction of the Prognosis Based on Chromosomal Instability-Related DNA Methylation Patterns of ELOVL2 and UBAC2 in PTCs |
title_short |
Prediction of the Prognosis Based on Chromosomal Instability-Related DNA Methylation Patterns of ELOVL2 and UBAC2 in PTCs |
title_full |
Prediction of the Prognosis Based on Chromosomal Instability-Related DNA Methylation Patterns of ELOVL2 and UBAC2 in PTCs |
title_fullStr |
Prediction of the Prognosis Based on Chromosomal Instability-Related DNA Methylation Patterns of ELOVL2 and UBAC2 in PTCs |
title_full_unstemmed |
Prediction of the Prognosis Based on Chromosomal Instability-Related DNA Methylation Patterns of ELOVL2 and UBAC2 in PTCs |
title_sort |
prediction of the prognosis based on chromosomal instability-related dna methylation patterns of elovl2 and ubac2 in ptcs |
publisher |
Elsevier |
series |
Molecular Therapy: Nucleic Acids |
issn |
2162-2531 |
publishDate |
2019-12-01 |
description |
Papillary thyroid carcinoma (PTC) is the most common malignant tumor of endocrine systems. Chromosomal instability (CIN) is crucial to the clinical prognoses of tumor patients. DNA methylation plays an important role in the regulation of gene expression and CIN. Based on PTC samples from The Cancer Genome Atlas database, we used multiple regression analyses to identify methylation patterns of CpG sites with the strongest correlation with gene expression. A total of 4,997 genes were obtained through combining the CpG sites, which were represented as featured DNA methylation patterns. In order to identify CIN-related epigenetic markers of PTC survival, we developed a method to characterize CIN based on DNA methylation patterns of genes using the Student’s t statistics. We found that 1,239 genes were highly associated with CIN. With the use of the log-rank test, univariate Cox regression analyses, and the Kaplan-Meier method, DNA methylation patterns of UBAC2 and ELOVL2, highly correlated with CIN, provided potential prognostic values for PTC. The higher these two genes, risk scores were correlated with worse PTC patient prognoses. Moreover, the ELOVL2 risk score was significantly different in the four stages of PTC, suggesting that it was related to the progress of PTC. The DNA methylation pattern associated with CIN may therefore be a good predictor of PTC survival. Keywords: papillary thyroid carcinoma, chromosomal instability, DNA methylation, gene expression, prognosis |
url |
http://www.sciencedirect.com/science/article/pii/S2162253119302756 |
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