|
| Status |
Public on Aug 02, 2011 |
| Title |
Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression (RNA-Seq data) |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
Noncoding RNAs (ncRNAs) are emerging as key molecules in human cancer, with the potential to serve as novel markers of disease and to reveal uncharacterized aspects of tumor biology. Here we discover 121 unannotated prostate cancer–associated ncRNA transcripts (PCATs) by ab initio assembly of high-throughput sequencing of polyA+ RNA (RNA-Seq) from a cohort of 102 prostate tissues and cells lines. We characterized one ncRNA, PCAT-1, as a prostate-specific regulator of cell proliferation and show that it is a target of the polycomb repressive complex 2 (PRC2). We further found that patterns of PCAT-1 and PRC2 expression stratified patient tissues into molecular subtypes distinguished by expression signatures of PCAT-1–repressed target genes. Taken together, our findings suggest that PCAT-1 is a transcriptional repressor implicated in a 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.
|
| |
|
| Overall design |
21 prostate cell lines sequenced on the Illumina Genome Analyzer and GAII. Variable number of replicates per sample. RNA-Seq data from prostate cancer tissues used in this study will be made available on dbGAP.
|
| |
|
| Contributor(s) |
Chinnaiyan AM, Iyer M, Prensner J |
| Citation(s) |
21804560 |
| Submission date |
Nov 08, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Matthew Iyer |
| E-mail(s) |
mkiyer@med.umich.edu
|
| Phone |
7346154503
|
| Organization name |
University of Michigan
|
| Department |
Michigan Center for Translational Pathology
|
| Lab |
Chinnaiyan Lab
|
| Street address |
5316 CCGC 0940 1400 E. Medical Center Drive
|
| City |
Ann Arbor |
| State/province |
MI |
| ZIP/Postal code |
48109-0940 |
| Country |
USA |
| |
|
| Platforms (2) |
| GPL9052 |
Illumina Genome Analyzer (Homo sapiens) |
| GPL9115 |
Illumina Genome Analyzer II (Homo sapiens) |
|
| Samples (58)
|
|
| This SubSeries is part of SuperSeries: |
| GSE31728 |
Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression |
|
| Relations |
| SRA |
SRP004637 |
| BioProject |
PRJNA153913 |
Less...
More...