|
| Status |
Public on Mar 21, 2010 |
| Title |
stroma, replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
FACS sorted mammary cell subpopulation
|
| Organism |
Mus musculus |
| Characteristics |
gender: female
cell subpopulation: stroma
mouse pool (biological replicate): 2
hybridization batch: 1
beadchip barcode: 4481850214
beadchip section: E
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA from sorted cell populations was prepared with the RNeasy Micro kit (Qiagen). RNA quality was ascertained using the Agilent Bioanalyser 2100 with the NanoChip protocol.
|
| Label |
Cy3
|
| Label protocol |
We labeled up to 500 ng with the Total Prep RNA amplification kit (Ambion).
|
| |
|
| Hybridization protocol |
Labeled cRNA (1.5 μg) was prepared for hybridization to Illumina mouseWG-6 V2 (R1) BeadChips.
|
| Scan protocol |
After washing, we coupled the chips with Cy3 and scanned them in an Illumina BeadArray Reader.
|
| Description |
no additional information
|
| Data processing |
Un-normalized summary probe profiles were output from BeadStudio and analysed using the limma packages of the Bioconductor open-source software project (http://www.bioconductor.org). The raw intensities were normalized using the neqc function with offset 16.
|
| |
|
| Submission date |
Dec 13, 2009 |
| Last update date |
Mar 21, 2010 |
| Contact name |
Jane E Visvader |
| E-mail(s) |
visvader@wehi.edu.au
|
| Phone |
(+61 3) 93452494
|
| Fax |
(+61 3) 93470852
|
| Organization name |
The Walter and Eliza Hall Institute of Medical Research
|
| Department |
Victorian Breast Cancer Research Consortium
|
| Lab |
Lindeman/Visvader Lab
|
| Street address |
1G Royal Parade
|
| City |
Parkville |
| State/province |
Victoria |
| ZIP/Postal code |
3052 |
| Country |
Australia |
| |
|
| Platform ID |
GPL6887 |
| Series (1) |
| GSE19446 |
Gene expression profiles of normal mouse mammary cell subpopulations FACS sorted based on expression of biomarkers |
|
