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Comprehensive analysis of differential co-expression patterns reveal transcriptional dysregulation mechanism and identify novel prognostic lncRNAs in esophageal squamous cell carcinoma

文献类型：期刊论文

作者Li, Zhen3; Yao, Qianlan3; Zhao, Songjian3; Li, Yixue3; Wang, Yin1,4; Li, Yixue2; Wang, Zhen2; ,
刊名ONCOTARGETS AND THERAPY
出版日期2017
卷号10期号:-页码:3095-3105
关键词ESCC differential co-expression analysis differential regulation analysis dysregulation lncRNA prognostic biomarker
ISSN号1178-6930
DOI10.2147/OTT.S135312
文献子类Article
英文摘要Esophageal squamous cell carcinoma (ESCC) is one of the most common malignancies worldwide and occurs at a relatively high frequency in People's Republic of China. However, the molecular mechanism underlying ESCC is still unclear. In this study, the mRNA and long non-coding RNA (lncRNA) expression profiles of ESCC were downloaded from the Gene Expression Omnibus database, and then differential co-expression analysis was used to reveal the altered co-expression relationship of gene pairs in ESCC tumors. A total of 3,709 mRNAs and 923 lncRNAs were differentially co-expressed between normal and tumor tissues, and we found that most of the gene pairs lost associations in the tumor tissues. The differential regulatory networking approach deciphered that transcriptional dysregulation was ubiquitous in ESCC, and most of the differentially regulated links were modulated by 37 TFs. Our study also found that two novel lncRNAs (ADAMTS9-AS1 and AP000696.2) might be essential in the development of ectoderm and epithelial cells, which could significantly stratify ESCC patients into high-risk and low-risk groups, and were much better than traditional clinical tumor markers. Further inspection of two risk groups showed that the changes in TF-target regulation in the high-risk patients were significantly higher than those in the low-risk patients. In addition, four signal transduction-related DCmRNAs (ERBB3, ENSA, KCNK7, MFSD5), which were differentially co-expressed with the two lncRNAs, might also have the predictive capacity. Our findings will enhance the understanding of ESCC transcriptional dysregulation from a view of cross-link of lncRNA and mRNA, and the two-lncRNA combination may serve as a novel prognostic biomarker for clinical applications of ESCC.
学科主题Biotechnology & Applied Microbiology ; Oncology
WOS关键词NONCODING RNA HOTAIR ; ARACHIDONIC-ACID METABOLISM ; HUMAN CANCER ; TUMOR-SUPPRESSOR ; SURVIVAL MODELS ; SYSTEMS BIOLOGY ; CDNA MICROARRAY ; BREAST-CANCER ; LUNG-CANCER ; EXPRESSION
语种英语
WOS记录号WOS:000403783500001
出版者DOVE MEDICAL PRESS LTD
版本出版稿
源URL[http://202.127.25.144/handle/331004/932]  
专题中国科学院上海生命科学研究院营养科学研究所
作者单位1.Shanghai Acad Sci & Technol, Shanghai Ctr Bioinformat Technol, Shanghai, Peoples R China;
2.Chinese Acad Sci, Shanghai Inst Biol Sci, CAS MPG Partner Inst Computat Biol, Key Lab Computat Biol, Shanghai, Peoples R China,
3.Shanghai Jiao Tong Univ, Sch Life Sci & Biotechnol, 800 Dong Chuan Rd, Shanghai 200240, Peoples R China;
4.Fudan Univ, Collaborat Innovat Ctr Genet & Dev, Shanghai, Peoples R China;
推荐引用方式
GB/T 7714		 Li, Zhen,Yao, Qianlan,Zhao, Songjian,et al. Comprehensive analysis of differential co-expression patterns reveal transcriptional dysregulation mechanism and identify novel prognostic lncRNAs in esophageal squamous cell carcinoma[J]. ONCOTARGETS AND THERAPY,2017,10(-):3095-3105.
APA Li, Zhen.,Yao, Qianlan.,Zhao, Songjian.,Li, Yixue.,Wang, Yin.,...&,.(2017).Comprehensive analysis of differential co-expression patterns reveal transcriptional dysregulation mechanism and identify novel prognostic lncRNAs in esophageal squamous cell carcinoma.ONCOTARGETS AND THERAPY,10(-),3095-3105.
MLA Li, Zhen,et al."Comprehensive analysis of differential co-expression patterns reveal transcriptional dysregulation mechanism and identify novel prognostic lncRNAs in esophageal squamous cell carcinoma".ONCOTARGETS AND THERAPY 10.-(2017):3095-3105.

入库方式： OAI收割

来源：上海营养与健康研究所

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