Unknown,Transcriptomics,Genomics,Proteomics

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Complete transcriptomic landscape of prostate cancer in the Chinese population using RNA-seq


ABSTRACT: There are remarkable disparities among patients of different races with prostate cancer; however, the mechanism underlying this difference remains unclear. Here, we present a comprehensive landscape of the transcriptome profiles of 14 primary prostate cancers and their paired normal counterparts from the Chinese population using RNA-seq, revealing tremendous diversity across prostate cancer transcriptomes with respect to gene fusions, long noncoding RNAs (long ncRNA), alternative splicing and somatic mutations. Three of the 14 tumors (21.4%) harbored a TMPRSS2-ERG fusion, and the low prevalence of this fusion in Chinese patients was further confirmed in an additional tumor set (10/54=18.5%). Notably, two novel gene fusions, CTAGE5-KHDRBS3 (20/54=37%) and USP9Y-TTTY15 (19/54=35.2%), occurred frequently in our patient cohort. Further systematic transcriptional profiling identified numerous long ncRNAs that were differentially expressed in the tumors. An analysis of the correlation between expression of long ncRNA and genes suggested that long ncRNAs may have functions beyond transcriptional regulation. This study yielded new insights into the pathogenesis of prostate cancer in the Chinese population.Cell Research advance online publication 21 February 2012; doi:10.1038/cr.2012.30.

ORGANISM(S): Homo sapiens

SUBMITTER: Jibin Zhang 

PROVIDER: E-MTAB-567 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

RNA-seq analysis of prostate cancer in the Chinese population identifies recurrent gene fusions, cancer-associated long noncoding RNAs and aberrant alternative splicings.

Ren Shancheng S   Peng Zhiyu Z   Mao Jian-Hua JH   Yu Yongwei Y   Yin Changjun C   Gao Xin X   Cui Zilian Z   Zhang Jibin J   Yi Kang K   Xu Weidong W   Chen Chao C   Wang Fubo F   Guo Xinwu X   Lu Ji J   Yang Jun J   Wei Min M   Tian Zhijian Z   Guan Yinghui Y   Tang Liang L   Xu Chuanliang C   Wang Linhui L   Gao Xu X   Tian Wei W   Wang Jian J   Yang Huanming H   Wang Jun J   Sun Yinghao Y  

Cell research 20120221 5


There are remarkable disparities among patients of different races with prostate cancer; however, the mechanism underlying this difference remains unclear. Here, we present a comprehensive landscape of the transcriptome profiles of 14 primary prostate cancers and their paired normal counterparts from the Chinese population using RNA-seq, revealing tremendous diversity across prostate cancer transcriptomes with respect to gene fusions, long noncoding RNAs (long ncRNA), alternative splicing and so  ...[more]

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