Integrative genomic analyses reveal clinically relevant long noncoding RNAs in human cancer

被引：463

作者：

Du, Zhou ^{[1
]}

Fei, Teng ^{[2
,3
,4
,5
,6
,7
]}

Verhaak, Roel G. W. ^{[8
]}

Su, Zhen ^{[9
]}

Zhang, Yong ^{[1
]}

Brown, Myles ^{[2
,3
,4
,5
]}

Chen, Yiwen ^{[6
,7
]}

Liu, X. Shirley ^{[2
,6
,7
]}

机构：

[1] Tongji Univ, Sch Life Sci & Technol, Dept Bioinformat, Shanghai 200092, Peoples R China

[2] Dana Farber Canc Inst, Ctr Funct Canc Epigenet, Boston, MA 02115 USA

[3] Dana Farber Canc Inst, Dept Med Oncol, Boston, MA 02115 USA

[4] Brigham & Womens Hosp, Dept Med, Boston, MA 02115 USA

[5] Harvard Univ, Sch Med, Boston, MA USA

[6] Dana Farber Canc Inst, Dept Biostat & Computat Biol, Boston, MA 02115 USA

[7] Harvard Univ, Sch Publ Hlth, Boston, MA 02115 USA

[8] Univ Texas MD Anderson Canc Ctr, Div Quantitat Sci, Dept Bioinformat & Computat Biol, Houston, TX 77030 USA

[9] China Agr Univ, Coll Biol Sci, Beijing 100094, Peoples R China

来源：

NATURE STRUCTURAL & MOLECULAR BIOLOGY | 2013年 / 20卷 / 07期

基金：

中国国家自然科学基金; 美国国家卫生研究院;

关键词：

COPY-NUMBER ALTERATION; EXON ARRAYS; GENE; EXPRESSION; CHROMATIN; TRANSCRIPTOME; IDENTIFICATION; SEQ; MODELS; RISK;

D O I：

10.1038/nsmb.2591

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Despite growing appreciation of the importance of long noncoding RNAs (lncRNAs) in normal physiology and disease, our knowledge of cancer-related lncRNAs remains limited. By repurposing microarray probes, we constructed expression profiles of 10,207 lncRNA genes in approximately 1,300 tumors over four different cancer types. Through integrative analysis of the lncRNA expression profiles with clinical outcome and somatic copy-number alterations, we identified lncRNAs that are associated with cancer subtypes and clinical prognosis and predicted those that are potential drivers of cancer progression. We validated our predictions by experimentally confirming prostate cancer cell growth dependence on two newly identified lncRNAs. Our analysis provides a resource of clinically relevant lncRNAs for the development of lncRNA biomarkers and the identification of lncRNA therapeutic targets. It also demonstrates the power of integrating publically available genomic data sets and clinical information for discovering disease-associated lncRNAs.

引用

页码：908 / +

页数：8

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