|
| Status |
Public on Mar 31, 2010 |
| Title |
Muscle.SBD.4 |
| Sample type |
RNA |
| |
|
| Source name |
Muscle: SBD
|
| Organism |
Mus musculus |
| Characteristics |
strain: DBA/2J
tissue: Muscle
treatment: standard breeding diet
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated by TRIzolTM Plus after tissue homogenization (Invitrogen, Carlsbad, CA) according to the manufacturer’s protocols. RNA quality was assessed using an Agilent 2100 Bioanalyzer instrument and RNA 6000 Nano LabChip assay (Agilent Technologies, Palo Alto, CA). Total RNA was then reverse transcribed followed by second strand cDNA synthesis. An in vitro transcription (IVT) reaction was carried out incorporating biotinylated nucleotides according to the manufacturer’s protocol for Illumina® Totalprep RNA amplification kit (Ambion, Austin TX). 1.5µg biotin-labeled cRNA was hybridized onto Mouse-6 Expression BeadChips (Illumina, San Diego CA) for 16 hours at 55°C.
|
| Label |
biotin
|
| Label protocol |
Standard Illumina hybridization protocol
|
| |
|
| Hybridization protocol |
Standard Illumina scanning protocol
|
| Scan protocol |
Probe set data, mean pixel intensities by bead type, were created using BeadStudio v3.1 and processed within the R/beadarray package
|
| Description |
SBD: biological replicate 4
|
| Data processing |
log2 transformation quantile normalization
|
| |
|
| Submission date |
Apr 24, 2009 |
| Last update date |
Jan 21, 2010 |
| Contact name |
Rachael S Hageman |
| E-mail(s) |
rachael.hageman@jax.org
|
| Phone |
216-906-2306
|
| URL |
http://rachael.hageman@jax.org
|
| Organization name |
The Jackson Laboratory
|
| Street address |
600 Main Street
|
| City |
Bar Harbor |
| State/province |
ME |
| ZIP/Postal code |
04609 |
| Country |
USA |
| |
|
| Platform ID |
GPL6105 |
| Series (1) |
| GSE15822 |
High-fat diet leads to tissue-specific changes reflecting risk factors for diseases in DBA/2J mice |
|
