Comprehensive characterization of lncRNA-mRNA related ceRNA network across 12 major cancers

Oncotarget
Yunpeng ZhangXia Li

Abstract

Recent studies indicate that long noncoding RNAs (lncRNAs) can act as competing endogenous RNAs (ceRNAs) to indirectly regulate mRNAs through shared microRNAs, which represents a novel layer of RNA crosstalk and plays critical roles in the development of tumor. However, the global regulation landscape and characterization of these lncRNA related ceRNA crosstalk in cancers is still largely unknown. Here, we systematically characterized the lncRNA related ceRNA interactions across 12 major cancers and the normal physiological states by integrating multidimensional molecule profiles of more than 5000 samples. Our study suggest the large difference of ceRNA regulation between normal and tumor states and the higher similarity across similar tissue origin of tumors. The ceRNA related molecules have more conserved features in tumor networks and they play critical roles in both the normal and tumorigenesis processes. Besides, lncRNAs in the pan-cancer ceRNA network may be potential biomarkers of tumor. By exploring hub lncRNAs, we found that these conserved key lncRNAs dominate variable tumor hallmark processes across pan-cancers. Network dynamic analysis highlights the critical roles of ceRNA regulation in tumorigenesis. By analyzing ...Continue Reading

References

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Citations

Oct 28, 2017·Briefings in Bioinformatics·Yongsheng LiJuan Xu
Sep 25, 2017·Journal of Cellular and Molecular Medicine·Xiangyi KongYanguo Kong
Feb 22, 2018·Biomarkers : Biochemical Indicators of Exposure, Response, and Susceptibility to Chemicals·Guanying ZhangJianchang Li
Apr 24, 2020·PLoS Computational Biology·Junpeng ZhangThuc Duy Le
Aug 18, 2018·Experimental and Therapeutic Medicine·Bo JiaQin Li
Dec 6, 2017·Molecular Medicine Reports·Hanyun Zhang, Wenjie Lu
Nov 23, 2019·World Journal of Gastroenterology : WJG·Feng-Zhi Li, Wen-Qiao Zang
Jan 24, 2018·World Journal of Gastroenterology : WJG·Wen-Hua XueJie Zhao
Aug 18, 2020·OncoTargets and Therapy·Xiulei ZhangGuangzhi Liu
Dec 7, 2018·International Journal of Molecular Sciences·Kobra ForoughiMehdi Manoochehri
Feb 23, 2020·Molecular Genetics & Genomic Medicine·Shu-Tong ZhuangJian-Feng Wen
Apr 23, 2020·International Journal of Molecular Medicine·Jianghuai JiDongguo Li
Jun 17, 2020·Molecular Genetics & Genomic Medicine·Yi-Feng HuangXin-Xiang Lu
Apr 14, 2020·Cell Biochemistry and Function·Nanchang WuShiting Li
Jun 26, 2020·Cancer Management and Research·Xian Hu ZhangXin Yao Wu
Apr 14, 2017·Expert Opinion on Therapeutic Targets·Lian-Ju LiDong-Qing Ye
Nov 17, 2020·Frontiers in Cell and Developmental Biology·Zhi-Hai DengJian-Zhong Deng

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Methods Mentioned

BETA
RNA-seq
AGO

Software Mentioned

PITA
Ago CLIP
TargetScan
miRanda
COSMIC
subpathwayMiner
GSEA
MirWalk
RNAhybrid

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