|
| Status |
Public on Sep 01, 2017 |
| Title |
Rb/p107 DKO mouse retina at P8, biological rep3 |
| Sample type |
RNA |
| |
|
| Source name |
Mouse Retina
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57Bl/6x129SvJ
tissue: retina
genotype: Rb/p107 DKO
developmental stage: P8
|
| Growth protocol |
Mouse retina dissected from postnatal day 8
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Samples were snap frozen in liquid N2 and genotyped. Tail samples were collected for genotyping. RNA was extracted using RNAeasy (Qiagen). Wild-type and mutants samples of sufficient RNA integrity scores (>8, assessed by Bioanalyzer) were included. cDNA synthesis and amplification was performed using the WT cDNA synthesis and amplification kit (Affymetrix).
|
| Label |
biotin
|
| Label protocol |
Samples were enzymatically fragmented and biotinylated using the WT Terminal Labeling Kit (Affymetrix)
|
| |
|
| Hybridization protocol |
Samples were hybridized using Affymetrix hybridization kit materials • Heat cocktails at 99° for 5 minutes, then 42° for 5 minutes centrifuge at max speed for 1 minute (N.B. this deviates from Affy SOP). • Transfer 200μl of hyb solution to each array, then tape holes and parafilm. • Hybridize 16 hours at 45° at 60rpm• Fluidics washing is FS450_0001
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner
|
| Description |
RB/P107 DKO
|
| Data processing |
Data were processed using R. RMA background correction was applied to probe intensities, gene level expression were summarized from the corrected intensities and then log2 transformed.
|
| |
|
| Submission date |
Sep 01, 2016 |
| Last update date |
Sep 01, 2017 |
| Contact name |
Sean R McCurdy |
| Organization name |
University of Toronto
|
| Department |
Laboratory Medicine and Pathobiology
|
| Street address |
27 King's College Circle
|
| City |
Toronto |
| ZIP/Postal code |
M5S 1A1 |
| Country |
Canada |
| |
|
| Platform ID |
GPL20775 |
| Series (1) |
| GSE86372 |
Expression data from P8 mouse postnatal retina with various Rb mutant conditions |
|
