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| Status |
Public on Apr 11, 2014 |
| Title |
RNAseq Analysis of Formalin-Fixed Paraffin-Embedded Prostate Cancer Tissues |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
In an effort to identify biomarkers of recurrence, we have performed global RNA-sequencing on 106 formalin-fixed, paraffin-embedded (FFPE) prostatectomy samples from 100 patients at three independent sites, and identified a new set of biomarkers of biochemical recurrence composed of a 24-gene panel. We validated this 24-gene panel on an independent publicly available dataset of 140 patients and this new panel outperformed previously published markers based on cell proliferation gene sets in terms of prediction of biochemical recurrence (BCR). In addition we identified differences in gene expression between Gleason Pattern 4+3 and Gleason Pattern 3+4 tumors.
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| |
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| Overall design |
106 samples from 100 patients were sequenced. Six samples were sequenced from two independent RNA preps and libraries. All samples were taken from FFPE Radical Prostatectomies. Samples were obtained from Atlanta VA Medical Center, U. Toronto Sunnybrook Research Centre, and Moffitt Cancer Center.
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| |
|
| Contributor(s) |
Moreno CS |
| Citation(s) |
24713434 |
| |
| Submission date |
Jan 28, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Carlos Moreno |
| E-mail(s) |
cmoreno@emory.edu
|
| Organization name |
Emory University
|
| Department |
Department of Pathology & Laboratory Medicine
|
| Lab |
Whitehead Research Building, Room 105J
|
| Street address |
615 Michael St
|
| City |
Atlanta |
| State/province |
Georgia |
| ZIP/Postal code |
30322 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (106)
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| Relations |
| BioProject |
PRJNA237581 |
| SRA |
SRP036848 |
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