|
| Status |
Public on Dec 01, 2010 |
| Title |
abKOvsbflox3 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Gastrocnemius muscle PGC-1beta f/f
|
| Organism |
Mus musculus |
| Characteristics |
sex: male
age: 12 week old
tissue: Gastrocnemius muscle
strain: C57BL6/J x sv129
genotype/variation: PGC-1beta f/f
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the Trizol method.
|
| Label |
Cy3
|
| Label protocol |
1 ug Cy3 and Cy5-labeled cRNA was mixed and fragmented according to the Agilent technologies protocol.
|
| |
|
| Channel 2 |
| Source name |
Gastrocnemius muscle PGC-1alpha-/- beta f/f/Mlc1fCre
|
| Organism |
Mus musculus |
| Characteristics |
sex: male
age: 12 week old
tissue: Gastrocnemius muscle
strain: C57BL6/J x sv129
genotype/variation: PGC-1alpha-/- beta f/f/Mlc1fCre
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the Trizol method.
|
| Label |
Cy5
|
| Label protocol |
1 ug Cy3 and Cy5-labeled cRNA was mixed and fragmented according to the Agilent technologies protocol.
|
| |
|
| |
| Hybridization protocol |
Samples were hybridized in 3 hybridizations per KO group, each normalized to control. Agilent platform Agilent-014868 Whole Mouse Genome Microarray 4x44K G4122F was used.
|
| Scan protocol |
Arrays were scanned on an Axon Scanner to detect Cy3 and Cy5 flourescence.
|
| Data processing |
GenePix Pro 6.0 acquisition and analysis software was used to visualize and analyze the 16-bit TIFF files generated by the scanner. After cluster analysis, sample 6 and 12 were excluded.
For further analysis, GenePix 4000B with global normalization was used to normalize the ratio of medians (635/532) representing KO vs control was used for probes with flag = 0 (present).
|
| |
|
| Submission date |
Aug 02, 2010 |
| Last update date |
Oct 31, 2010 |
| Contact name |
Christoph Zechner |
| Organization name |
Sanford-Burnham Medical Research Institute at Lake Nona
|
| Lab |
PI: Daniel P. Kelly, MD
|
| Street address |
6400 Sanger Road
|
| City |
Orlando |
| State/province |
FL |
| ZIP/Postal code |
32827 |
| Country |
USA |
| |
|
| Platform ID |
GPL7202 |
| Series (1) |
| GSE23365 |
Microarray skeletal muscle PGC-1alpha-/- - beta f/f/Mlc1fCre mice |
|
