|
| Status |
Public on Feb 04, 2013 |
| Title |
Patient-17-5a |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Prostate cancer metastasis
|
| Organism |
Homo sapiens |
| Characteristics |
subject id: 17
sample id: 16060
tissue type: Prostate cancer metastasis
|
| Growth protocol |
DNA was obtained from metastatic prostate cancer tissues from the PELICAN rapid autopsy program at Johns Hopkins University, and from normal prostate tissues from organ donors.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TriZol extraction followed by RNeasy kit (Qiagen) clean-up with on-column DNase treatment
|
| Label |
Cy5
|
| Label protocol |
Agilent low RNA input linear amplification kit
|
| |
|
| Channel 2 |
| Source name |
pooled reference
|
| Organism |
Homo sapiens |
| Characteristics |
sample type: pooled reference
|
| Growth protocol |
DNA was obtained from metastatic prostate cancer tissues from the PELICAN rapid autopsy program at Johns Hopkins University, and from normal prostate tissues from organ donors.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TriZol extraction followed by RNeasy kit (Qiagen) clean-up with on-column DNase treatment
|
| Label |
Cy3
|
| Label protocol |
Agilent low RNA input linear amplification kit
|
| |
|
| |
| Hybridization protocol |
Agilent Gene Expression Hybridization Kit using the manufacturer's protocol.
|
| Scan protocol |
Microarrays are scanned with the Agilent G2565BA microarray scanner
|
| Data processing |
The Bioconductor limma (v 3.10.3) was used to background correct (normexp model), loess and quantile normalize the data
|
| |
|
| Submission date |
May 25, 2012 |
| Last update date |
Feb 04, 2013 |
| Contact name |
Martin Aryee |
| E-mail(s) |
aryee.martin@mgh.harvard.edu
|
| Organization name |
Massachusetts General Hospital
|
| Department |
Pathology
|
| Street address |
149 13th Street
|
| City |
Charlestown |
| State/province |
MA |
| ZIP/Postal code |
02129 |
| Country |
USA |
| |
|
| Platform ID |
GPL4133 |
| Series (2) |
| GSE38241 |
Gene expression profiling of normal prostates and prostate cancer metastases |
| GSE38242 |
DNA methylation alterations exhibit striking intra-individual stability and inter-individual heterogeneity across metastatic dissemination |
|
