Cargando…

Transcriptome Sequencing Identifies PCAT-1, a Novel lincRNA Implicated in Prostate Cancer Progression

High-throughput sequencing of polyA+ RNA (RNA-Seq) in human cancer shows remarkable potential to identify both novel markers of disease and uncharacterized aspects of tumor biology, particularly non-coding RNA (ncRNA) species. We employed RNA-Seq on a cohort of 102 prostate tissues and cells lines a...

Descripción completa

Detalles Bibliográficos
Autores principales: Prensner, John R., Iyer, Matthew K., Balbin, O. Alejandro, Dhanasekaran, Saravana M., Cao, Qi, Brenner, J. Chad, Laxman, Bharathi, Asangani, Irfan, Grasso, Catherine, Kominsky, Hal D., Cao, Xuhong, Jing, Xiaojun, Wang, Xiaoju, Siddiqui, Javed, Wei, John T., Robinson, Daniel, Iyer, Hari K., Palanisamy, Nallasivam, Maher, Christopher A., Chinnaiyan, Arul M.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: 2011
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3152676/
https://www.ncbi.nlm.nih.gov/pubmed/21804560
http://dx.doi.org/10.1038/nbt.1914
_version_ 1782209787144962048
author Prensner, John R.
Iyer, Matthew K.
Balbin, O. Alejandro
Dhanasekaran, Saravana M.
Cao, Qi
Brenner, J. Chad
Laxman, Bharathi
Asangani, Irfan
Grasso, Catherine
Kominsky, Hal D.
Cao, Xuhong
Jing, Xiaojun
Wang, Xiaoju
Siddiqui, Javed
Wei, John T.
Robinson, Daniel
Iyer, Hari K.
Palanisamy, Nallasivam
Maher, Christopher A.
Chinnaiyan, Arul M.
author_facet Prensner, John R.
Iyer, Matthew K.
Balbin, O. Alejandro
Dhanasekaran, Saravana M.
Cao, Qi
Brenner, J. Chad
Laxman, Bharathi
Asangani, Irfan
Grasso, Catherine
Kominsky, Hal D.
Cao, Xuhong
Jing, Xiaojun
Wang, Xiaoju
Siddiqui, Javed
Wei, John T.
Robinson, Daniel
Iyer, Hari K.
Palanisamy, Nallasivam
Maher, Christopher A.
Chinnaiyan, Arul M.
author_sort Prensner, John R.
collection PubMed
description High-throughput sequencing of polyA+ RNA (RNA-Seq) in human cancer shows remarkable potential to identify both novel markers of disease and uncharacterized aspects of tumor biology, particularly non-coding RNA (ncRNA) species. We employed RNA-Seq on a cohort of 102 prostate tissues and cells lines and performed ab initio transcriptome assembly to discover unannotated ncRNAs. We nominated 121 such Prostate Cancer Associated Transcripts (PCATs) with cancer-specific expression patterns. Among these, we characterized PCAT-1 as a novel prostate-specific regulator of cell proliferation and target of the Polycomb Repressive Complex 2 (PRC2). We further found that high PCAT-1 and PRC2 expression stratified patient tissues into molecular subtypes distinguished by expression signatures of PCAT-1-repressed target genes. Taken together, the findings presented herein identify PCAT-1 as a novel transcriptional repressor implicated in subset of prostate cancer patients. These findings establish the utility of RNA-Seq to identify disease-associated ncRNAs that may improve the stratification of cancer subtypes.
format Online
Article
Text
id pubmed-3152676
institution National Center for Biotechnology Information
language English
publishDate 2011
record_format MEDLINE/PubMed
spelling pubmed-31526762012-02-01 Transcriptome Sequencing Identifies PCAT-1, a Novel lincRNA Implicated in Prostate Cancer Progression Prensner, John R. Iyer, Matthew K. Balbin, O. Alejandro Dhanasekaran, Saravana M. Cao, Qi Brenner, J. Chad Laxman, Bharathi Asangani, Irfan Grasso, Catherine Kominsky, Hal D. Cao, Xuhong Jing, Xiaojun Wang, Xiaoju Siddiqui, Javed Wei, John T. Robinson, Daniel Iyer, Hari K. Palanisamy, Nallasivam Maher, Christopher A. Chinnaiyan, Arul M. Nat Biotechnol Article High-throughput sequencing of polyA+ RNA (RNA-Seq) in human cancer shows remarkable potential to identify both novel markers of disease and uncharacterized aspects of tumor biology, particularly non-coding RNA (ncRNA) species. We employed RNA-Seq on a cohort of 102 prostate tissues and cells lines and performed ab initio transcriptome assembly to discover unannotated ncRNAs. We nominated 121 such Prostate Cancer Associated Transcripts (PCATs) with cancer-specific expression patterns. Among these, we characterized PCAT-1 as a novel prostate-specific regulator of cell proliferation and target of the Polycomb Repressive Complex 2 (PRC2). We further found that high PCAT-1 and PRC2 expression stratified patient tissues into molecular subtypes distinguished by expression signatures of PCAT-1-repressed target genes. Taken together, the findings presented herein identify PCAT-1 as a novel transcriptional repressor implicated in subset of prostate cancer patients. These findings establish the utility of RNA-Seq to identify disease-associated ncRNAs that may improve the stratification of cancer subtypes. 2011-07-31 /pmc/articles/PMC3152676/ /pubmed/21804560 http://dx.doi.org/10.1038/nbt.1914 Text en Users may view, print, copy, download and text and data- mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use: http://www.nature.com/authors/editorial_policies/license.html#terms
spellingShingle Article
Prensner, John R.
Iyer, Matthew K.
Balbin, O. Alejandro
Dhanasekaran, Saravana M.
Cao, Qi
Brenner, J. Chad
Laxman, Bharathi
Asangani, Irfan
Grasso, Catherine
Kominsky, Hal D.
Cao, Xuhong
Jing, Xiaojun
Wang, Xiaoju
Siddiqui, Javed
Wei, John T.
Robinson, Daniel
Iyer, Hari K.
Palanisamy, Nallasivam
Maher, Christopher A.
Chinnaiyan, Arul M.
Transcriptome Sequencing Identifies PCAT-1, a Novel lincRNA Implicated in Prostate Cancer Progression
title Transcriptome Sequencing Identifies PCAT-1, a Novel lincRNA Implicated in Prostate Cancer Progression
title_full Transcriptome Sequencing Identifies PCAT-1, a Novel lincRNA Implicated in Prostate Cancer Progression
title_fullStr Transcriptome Sequencing Identifies PCAT-1, a Novel lincRNA Implicated in Prostate Cancer Progression
title_full_unstemmed Transcriptome Sequencing Identifies PCAT-1, a Novel lincRNA Implicated in Prostate Cancer Progression
title_short Transcriptome Sequencing Identifies PCAT-1, a Novel lincRNA Implicated in Prostate Cancer Progression
title_sort transcriptome sequencing identifies pcat-1, a novel lincrna implicated in prostate cancer progression
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3152676/
https://www.ncbi.nlm.nih.gov/pubmed/21804560
http://dx.doi.org/10.1038/nbt.1914
work_keys_str_mv AT prensnerjohnr transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT iyermatthewk transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT balbinoalejandro transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT dhanasekaransaravanam transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT caoqi transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT brennerjchad transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT laxmanbharathi transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT asanganiirfan transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT grassocatherine transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT kominskyhald transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT caoxuhong transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT jingxiaojun transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT wangxiaoju transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT siddiquijaved transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT weijohnt transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT robinsondaniel transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT iyerharik transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT palanisamynallasivam transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT maherchristophera transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression
AT chinnaiyanarulm transcriptomesequencingidentifiespcat1anovellincrnaimplicatedinprostatecancerprogression