|
| Status |
Public on Oct 04, 2016 |
| Title |
Wild type, biological replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
Wild type, gastrocnemius skeletal muscle
|
| Organism |
Mus musculus |
| Characteristics |
genotype: wild type
tissue: skeletal muscle, gastrocnemius
age: 24 weeks
genetic background: C57BL/6
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Directly following euthanasia, Gastrocnemius (GSC) muscles from the left hindlimb were directly frozen liquid nitrogen and stored at -80˚C. Total RNA was extracted from frozen GSC muscles using Trizol reagent (Life Technologies, USA) and cleaned up with RNeasy MinElute cleanup kit (Qiagen, USA) according to the manufacturers’ instructions, and then stored at -80oC until use.
|
| Label |
biotin
|
| Label protocol |
An aliquot of 250 ng of total high-quality RNA from each sample was used. cDNA and biotinylated cRNA were synthesized using the Affymetrix GeneChip® 3’ IVT Express Target Amplification, Labeling and Control Reagent kit according to manufacturer’s instructions.
|
| |
|
| Hybridization protocol |
15.2 ug of biotinylated cRNA was fragmented and hybridized to Affymetrix Gene-Chips MG 430 2.0 for 16 hours. The arrays were then washed and stained on the Affymetrix Fluidics station 400.
|
| Scan protocol |
Arrays were imaged using Hewlett Packard G2500A gene Array scanner according to manufacturer’s protocol
|
| Description |
Gene expression data from wild type mouse
|
| Data processing |
The R library affyQCReport was used for quality control. Raw CEL files were normalized using the RMA algorithm from affy library with Mouse4302_Mm_ENSG_v19.0.0 as custom Chip Description File (CDF) from the BRAINARRAY project (http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/19.0.0/ensg.asp) (R version 3.1.2)
|
| |
|
| Submission date |
Oct 03, 2016 |
| Last update date |
Oct 04, 2016 |
| Contact name |
Jyoti K. Jaiswal |
| E-mail(s) |
jkjaiswal@cnmc.org
|
| Organization name |
Children’s National Health System
|
| Department |
Center for Genetic Medicine Research
|
| Street address |
111 Michigan Av NW
|
| City |
Washington D. C. |
| ZIP/Postal code |
20010 |
| Country |
USA |
| |
|
| Platform ID |
GPL22519 |
| Series (1) |
| GSE87557 |
Role of annexin A2 in muscle repair |
|
