|
| Status |
Public on May 03, 2011 |
| Title |
Localized Postate Cancer 2 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Localized Postate Cancer
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Prostate
cell type: Cancer
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Human prostate tissue samples were obtained from the University of Michigan SPORE program. Total RNA were isolated from tissues using RNeasy Mini kit (Qiagen, Valencia, CA Inc, Valencia, CA) according to manufacturer’s instructions.
|
| Label |
Cy5
|
| Label protocol |
10 µg of total RNA were primed with 2 µl of 100 µM T16N2 DNA primer at 70°C for 10 min, then reversed transcribed at 42°C for 1 h in the presence of 400 U SuperScript II RTase (Invitrogen), and 100 µM each dATP, dTTP, dGTP, with 25 µM dCTP, 25 µM Cy3-label
|
| |
|
| Channel 2 |
| Source name |
Pool of Benign Prostate Tissue (CPP)
|
| Organism |
Homo sapiens |
| Characteristics |
tissue type: Prostate
cell type: Benign
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Human prostate tissue samples were obtained from the University of Michigan SPORE program. Total RNA were isolated from tissues using RNeasy Mini kit (Qiagen, Valencia, CA Inc, Valencia, CA) according to manufacturer’s instructions.
|
| Label |
Cy3
|
| Label protocol |
10 µg of total RNA were primed with 2 µl of 100 µM T16N2 DNA primer at 70°C for 10 min, then reversed transcribed at 42°C for 1 h in the presence of 400 U SuperScript II RTase (Invitrogen), and 100 µM each dATP, dTTP, dGTP, with 25 µM dCTP, 25 µM Cy3-label
|
| |
|
| |
| Hybridization protocol |
Oligoarray control targets and hybridization buffer (Agilent In Situ Hybridization Kit Plus) were added, and samples were applied to microarrays enclosed in Agilent SureHyb-enabled hybridization chambers. After hybridization, slides were washed sequential
|
| Scan protocol |
Scanned on an Agilent G2565AA scanner.
Images were quantified using Agilent Feature Extraction Software (version A.8.5.1.1).
|
| Description |
Localized prostate cancer tissue sample hybridized against pool of benign tissue samples
|
| Data processing |
Agilent Feature Extraction Software (v 8.5.1.1) was used for background subtraction and LOWESS normalization.
|
| |
|
| Submission date |
Mar 01, 2011 |
| Last update date |
May 03, 2011 |
| Contact name |
Jung Kim |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Michigan
|
| Street address |
1400 E. Medical Center Drive
|
| City |
Ann Arbor |
| State/province |
MI |
| ZIP/Postal code |
48109 |
| Country |
USA |
| |
|
| Platform ID |
GPL4133 |
| Series (2) |
| GSE27616 |
Agilent expression analysis of prostate cancer tissue samples |
| GSE27619 |
Deep sequencing reveals distinct patterns of DNA methylation and transcript isoform regulation in prostate cancer |
|
