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Status |
Public on Apr 10, 2010 |
Title |
Ovx, MaSC-enriched, replicate 2 |
Sample type |
RNA |
|
|
Source name |
FACS sorted mammary cell subpopulation
|
Organism |
Mus musculus |
Characteristics |
gender: female cell subpopulation: MaSC-enriched mouse type: OVX mouse pool (biological replicate): 3 beadchip barcode: 5022575015 beadchip section: F
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was isolated from the MaSC-enriched population (CD29hiCD24+) and luminal cells population (CD29loCD24+) sorted at > 90% purity using the miRNeasy Mini kit (Qiagen) and the DNA-free Kit (Ambion). RNA quality was ascertained using the Agilent Bioanalyser 2100 with the NanoChip protocol.
|
Label |
Cy3
|
Label protocol |
Up to 250 ng of RNA was labelled with the standard Total Prep RNA amplification kit (Ambion)
|
|
|
Hybridization protocol |
Complementary RNA (1.5 µg) was hybridised to Illumina MouseWG-6 V2 BeadChips.
|
Scan protocol |
After washing, chips were with Cy3 and scanned in an Illumina BeadArray Reader.
|
Description |
Ovx, MaSC-enriched, replicate 2
|
Data processing |
Un-normalized summary probe profiles were output from BeadStudio and analysed using the limma package of the Bioconductor open-source software project (http://www.bioconductor.org). The raw intensities were normalized using the neqc function (which does normexp background correction and quantile normalisation using control probes) with offset 50.
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|
|
Submission date |
Feb 18, 2010 |
Last update date |
Mar 30, 2010 |
Contact name |
Gordon K Smyth |
E-mail(s) |
smyth@wehi.edu.au
|
Phone |
(+61 3) 9345 2326
|
Fax |
(+61 3) 9347 0852
|
URL |
http://www.wehi.edu.au
|
Organization name |
Walter and Eliza Hall Institute of Medical Research
|
Department |
Bioinformatics
|
Lab |
Smyth
|
Street address |
1G Royal Pde
|
City |
Parkville |
State/province |
Vic |
ZIP/Postal code |
3052 |
Country |
Australia |
|
|
Platform ID |
GPL6887 |
Series (2) |
GSE20401 |
Mammary epithelial cell subpopulations from control and ovariectomized mice |
GSE22446 |
Control of mammary stem cell function by steroid hormone signalling. |
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