|
| Status |
Public on Oct 01, 2016 |
| Title |
mouse 2633, Homozygous |
| Sample type |
RNA |
| |
|
| Source name |
L2 MECs with constitutive expression of miR-150.
|
| Organism |
Mus musculus |
| Characteristics |
strain background: mixed (C57BL6 and FVB)
genotype/variation: Stop-150fl/fl; WAP-Cre+
age: lactation day 2 (L2; 65 days old)
tissue: mammary epithelial cells (MECs)
|
| Treatment protocol |
Adipose-depleted mouse mammary epithelial cells were isolated from the upper inguinal mammary glands as described in (Rudolph et al., 2009).
|
| Growth protocol |
At 8 weeks old, female mice were impregnated by WAP-Cre- males. Lactation day 1 was identified as the first day litters were present and tissue was harvested on lactation day 2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
One ug of total RNA from each sample was labelled with FlashTag Biotin RNA Labeling kit (Genisphere, Hatfield, PA, USA).
|
| |
|
| Hybridization protocol |
One ug of biotinylated RNA from each sample was hybridized onto Affymetrix® GeneChip Mouse Transcriptome Array 1.0 according to the manufacturer's recommendations.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
|
| Description |
21
|
| Data processing |
Affymetrix CEL files from all samples hybridized to the mRNA arrays were loaded on to Genespring GX10. Signal intensities for all probe sets were obtained using Robust Multichip Averaging summarization algorithm which involves three steps - background correction, quantile normalization and probe summarization (median polish). Quality control was performed by principal component analysis to identify outliers. Low intesity probe sets below 20 percentile were filtered prior to statistical analysis.
|
| |
|
| Submission date |
Apr 26, 2016 |
| Last update date |
Oct 01, 2016 |
| Contact name |
Jennifer K Richer |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Colorado Anschutz Medical Campus
|
| Department |
Pathology
|
| Lab |
Richer Lab
|
| Street address |
Mail Stop 8104, RC1N 5th Floor P18-5127, 12800 E. 19th Ave.
|
| City |
Aurora |
| State/province |
CO |
| ZIP/Postal code |
80045 |
| Country |
USA |
| |
|
| Platform ID |
GPL20258 |
| Series (1) |
| GSE80666 |
Expression profiling on lactation day 2 mammary epithelial cells from constitutive miR-150 expressing mice compared to controls. |
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