Identification of DNA methylated prognostic biomarkers for esophageal squamous cell carcinoma

ZHAO Ming; CHEN Siyu; and WANG Yuqi

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Medical Journal of the Chinese People Armed Police Forces ›› 2020, Vol. 31 ›› Issue (1) : 38-42.

Original Articles

Identification of DNA methylated prognostic biomarkers for esophageal squamous cell carcinoma

ZHAO Ming,CHEN Siyu,and WANG Yuqi

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Abstract

Objective To identify prognostic biomarkers for ESCC patients in order to ensure good outcomes.Methods The DNA methylation profile data on 96 ESCC tissues and 3 normal tissues was downloaded from the Cancer Genome Atlas Database (TCGA). Cox proportional hazards regression and random survival forest-variable hunting were used to identify DNA methylated gene biomarkers in the samples that were randomly assigned to the training group, with other samples as the test subset. GO annotation was performed to explore the biological function of DNA methylated gene signatures.Results A total of 283 different methylation genes were identified in the ESCC data. Finally, 4 methylation genes (RRAGB, SYP, ERCC6L and RNASEH2CP1) that were significantly associated with patients’ survival time were identified as biomarkers. As the most accurate predictor, the area under the curve (AUC) in the training and test groups was 0.984 and 0.83, respectively. The signature was able to sort patients into high- and low-risk groups with meaningful survival rates in the training group, and its predictive ability was validated in the test dataset. Multivariable Cox regression analysis showed the methylation gene biomarker was an independent prognostic factor for ESCC patients. Functional analysis suggested that these signature genes might be related to the regulation of transcription and DNA binding.Conclusions DNA methylation gene signatures could be novel prognostic biomarkers and can help predict the survival of ESCC patients independently.

Key words

ESCC / DNA methylation gene signature / prognosis / TCGA

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ZHAO Ming,CHEN Siyu,and WANG Yuqi. Identification of DNA methylated prognostic biomarkers for esophageal squamous cell carcinoma[J]. Medical Journal of the Chinese People Armed Police Forces. 2020, 31(1): 38-42

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