|
| Status |
Public on Dec 01, 2013 |
| Title |
WT, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
wild-type brain
|
| Organism |
Mus musculus |
| Characteristics |
tissue: brain
genotype: wild-type
|
| Treatment protocol |
N/A
|
| Growth protocol |
PTBP2 KO mice were genotyped and whole brains were dissected from 3 mutant and 3 wild-type animals.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extracted total RNA from mouse brain was further treated with DnaseI and purified by phenol/chloroform extraction, then treated with Ribominus (Invitrogen).
|
| Label |
biotin
|
| Label protocol |
cDNA synthesis and amplification was performed using the GeneChip® Whole Transcript Sense Target Labeling and Control Reagents kit (Affymetrix). Targets were enzymatically fragmented and biotinylated using the WT Target Labeling Kit (Affymetrix)
|
| |
|
| Hybridization protocol |
Hybridization was performed as specified, with the GeneChip Hybridization Wash and Stain Kit (Affymetrix)
|
| Scan protocol |
Affymetrix Gene ChIP Scanner 3000 7G
|
| Data processing |
Affymetrix package (Affy Power Tools) apt-probeset-summarize. Iter-plier algorithm used to quantify probesets.
probe group file: GPL13185_mjay.pgf
meta-probeset file: GPL13185_mjay.clf
|
| |
|
| Submission date |
Oct 25, 2013 |
| Last update date |
Dec 01, 2013 |
| Contact name |
Areum Han |
| E-mail(s) |
arhan@ucla.edu
|
| Organization name |
UCLA
|
| Lab |
Black lab
|
| Street address |
6577 MacDonald Research Lab. 675 Charles E. Young Dr. South
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
| |
|
| Platform ID |
GPL13185 |
| Series (2) |
| GSE51738 |
Microarray analysis of alternative splicing in PTBP2 knockout mouse brain |
| GSE51740 |
Alternative splicing in PTBP2 knockout mouse brain |
|
