Unknown,Transcriptomics,Genomics,Proteomics

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Analysis of the RNA-Seq data of castration resistant prostate cancer (CRPCa)


ABSTRACT: Prostate cancer is the second leading cancer that causes the death of American men. In this study, we perform an integrative analysis of the whole-transcriptome of metastatic prostate cancer clinical samples. Specifically, we prepare our samples using an innovative protocol NuGEN, which captures the profile of the total RNA, rather than only the mRNA as the popular polyA selection protocol does. Unexpectedly high intronic expressions are observed including the gene AR (Androgen Receptor) and KLK3/PSA, a marker of prostate cancer. Further, certain amount of reads can be found to be across the intron-exon boundaries, suggesting that they come from unspliced pre-mRNAs. Interestingly, we also observe high splicing on a non-coding RNA MALAT-1. We believe that the aberrant splicing patterns are associated with prostate cancer development. Analysis of 8 clinical samples of metastatic prostate cancer patients

ORGANISM(S): Homo sapiens

SUBMITTER: hao zhao 

PROVIDER: E-GEOD-31528 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Whole transcriptome sequencing reveals extensive unspliced mRNA in metastatic castration-resistant prostate cancer.

Sowalsky Adam G AG   Xia Zheng Z   Wang Liguo L   Zhao Hao H   Chen Shaoyong S   Bubley Glenn J GJ   Balk Steven P SP   Li Wei W  

Molecular cancer research : MCR 20140904 1


<h4>Unlabelled</h4>Men with metastatic prostate cancer who are treated with androgen deprivation therapies (ADT) usually relapse within 2 to 3 years with disease that is termed castration-resistant prostate cancer (CRPC). To identify the mechanism that drives these advanced tumors, paired-end RNA-sequencing (RNA-seq) was performed on a panel of CRPC bone marrow biopsy specimens. From this genome-wide approach, mutations were found in a series of genes with prostate cancer relevance, including AR  ...[more]

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