Analysis of Microarray Data on Gene Expression and Methylation to Identify Long Non-coding RNAs in Non-small Cell Lung Cancer

被引：38

作者：

Feng, Nannan ^{[1
,2
]}

Ching, Travers ^{[3
]}

Wang, Yu ^{[4
]}

Liu, Ben ^{[4
]}

Lin, Hongyan ^{[1
,2
]}

Shi, Oumin ^{[1
,2
]}

Zhang, Xiaohong ^{[1
,2
]}

Zheng, Min ^{[1
,2
]}

Zheng, Xin ^{[1
,2
]}

Gao, Ming ^{[4
]}

Zheng, Zhi-jie ^{[1
,2
]}

Yu, Herbert ^{[3
]}

Garmire, Lana ^{[3
]}

Qian, Biyun ^{[1
,2
]}

机构：

[1] Shanghai Jiao Tong Univ, Sch Med, Shanghai Tongren Hosp, Hongqiao Int Inst Med, Shanghai 200025, Peoples R China

[2] Shanghai Jiao Tong Univ, Sch Med, Fac Publ Hlth, Shanghai 200025, Peoples R China

[3] Univ Hawaii, Ctr Canc, Canc Epidemiol Program, 701 Ilalo St, Honolulu, HI 96813 USA

[4] Tianjin Med Univ, Canc Inst & Hosp, Key Lab Canc Prevent & Therapy, Tianjin, Peoples R China

来源：

SCIENTIFIC REPORTS | 2016年 / 6卷

基金：

中国国家自然科学基金; 上海市自然科学基金;

关键词：

DNA METHYLATION; POOR-PROGNOSIS; DOWN-REGULATION; KPNA2; KARYOPHERIN-2; TD-60;

D O I：

10.1038/srep37233

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

To identify what long non-coding RNAs (lncRNAs) are involved in non-small cell lung cancer (NSCLC), we analyzed microarray data on gene expression and methylation. Gene expression chip and HumanMethylation450BeadChip were used to interrogate genome-wide expression and methylation in tumor samples. Differential expression and methylation were analyzed through comparing tumors with adjacent non-tumor tissues. LncRNAs expressed differentially and correlated with coding genes and DNA methylation were validated in additional tumor samples using RT-qPCR and pyrosequencing. In vitro experiments were performed to evaluate lncRNA's effects on tumor cells. We identified 8,500 lncRNAs expressed differentially between tumor and non-tumor tissues, of which 1,504 were correlated with mRNA expression. Two of the lncRNAs, LOC146880 and ENST00000439577, were positively correlated with expression of two cancer-related genes, KPNA2 and RCC2, respectively. High expression of LOC146880 and ENST00000439577 were also associated with poor survival. Analysis of lncRNA expression in relation to DNA methylation showed that LOC146880 expression was down-regulated by DNA methylation in its promoter. Lowering the expression of LOC146880 or ENST00000439577 in tumor cells could inhibit cell proliferation, invasion and migration. Analysis of microarray data on gene expression and methylation allows us to identify two lncRNAs, LOC146880 and ENST00000439577, which may promote the progression of NSCLC.

引用

页数：11

共 27 条

[1] KPNA2 is a nuclear export protein that contributes to aberrant localisation of key proteins and poor prognosis of breast cancer [J].