|
| Status |
Public on Jan 08, 2013 |
| Title |
Muscle_WT_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Gastrocnemius muscle from WT mouse
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
gender: Male
genotype/variation: wild type
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA from gastrocnemius was isolated with miRNeasy Mini Kit (QIAGEN)
|
| Label |
Biotin
|
| Label protocol |
Target synthesis was prepared starting from 250ng total RNA using the WT Expression kit (Ambion). Fragmentation and labeling of amplified cDNA were performed using the WT Terminal Labeling Kit (Affymetrix).
|
| |
|
| Hybridization protocol |
85µl cocktail (containing 2µg labeled DNA) was loaded on Mouse Gene 1.0 ST Array (Affymetrix) and hybridized for 17 hours (45°C, 60rpm) in Hybridization oven 645 (Affymetrix). The arrays were washed and stained on Fluidics Stations 450 (Affymetrix) by using the Hybridization Wash and Stain Kit (Affymetrix) under FS450_0007 protocol.
|
| Scan protocol |
GeneChips were scanned with an Affymetrix GeneChip Scanner 3000 7G.
|
| Description |
Gene expression data from gastrocnemius muscle of adult male mice.
|
| Data processing |
DAT images and CEL files of the microarrays were generated using Affymetrix GeneChip Command Control 3.0.0.1214.
Affymetrix CEL files were normalized according to RMA method (Irizarry, 2003) and data were log 2.0 transformed. To select differently expressed genes a 1-way ANOVA model by using Method of Moments (Eisenhart, 1947) was applied using Partek Genomic Suite (version 6.6).
|
| |
|
| Submission date |
Aug 28, 2012 |
| Last update date |
Jan 08, 2013 |
| Contact name |
Joaquín Pérez-Schindler |
| E-mail(s) |
j.perezschindler@unibas.ch
|
| Organization name |
University of Basel
|
| Department |
Biozentrum
|
| Street address |
Klingelbergstrasse 50 / 70
|
| City |
Basel |
| ZIP/Postal code |
4056 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL6246 |
| Series (1) |
| GSE40439 |
Gene expression analysis of Ncor1 muscle-specific knockout and PGC-1alpha muscle-specific transgenic skeletal muscle |
|
