|
| Status |
Public on Oct 31, 2008 |
| Title |
BALB/CByJ Liver No treatment 10w |
| Sample type |
RNA |
| |
|
| Source name |
BALB/CByJ Liver
|
| Organism |
Mus musculus |
| Characteristics |
Male BALB/CByJ 10 week old liver
|
| Biomaterial provider |
Jackson Laboratory
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol, Qiagen RNeasy. Liver tissue was lysed using the Qiagen TissueLyser (Qiagen). Total RNA was isolated from each homogenate using the standard Trizol protocol and then further purified with the RNeasy kit (Qiagen). Samples were quantified using the NanoDrop ND-1000.
|
| Label |
biotin
|
| Label protocol |
Double-stranded cDNA was prepared from 1 μg of total RNA using the Affymetrix cDNA synthesis kit and then in vitro transcribed using an IVT labeling kit (Affymetrix), with the cRNA product purified using a GeneChip Sample Cleanup Module (Affymetrix).
|
| |
|
| Hybridization protocol |
20 μg biotin-labeled cRNA was fragmented and hybridized to Affymetrix Mouse 430 2.0 microarray overnight in the Affy 640 hybridization oven with a speed of 60 rpm for 16 hr. Microarrays were washed and stained using the Affymetrix Fluidics Station FS400.
|
| Scan protocol |
GeneChip arrays were scanned using a GeneChip Scanner 3000 (Affymetrix).
|
| Description |
none
|
| Data processing |
The probe set intensities were quantified using the GeneChip Operating Software (GCOS) and analyzed with GCRMA normalization using Array Assist Software (Stratagene, Cedar Creek, TX). All hybridized chips met standard quality control criteria, and mean fluorescence values of each array were scaled to a mean intensity of 500.
|
| |
|
| Submission date |
Feb 04, 2008 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Mathew T Pletcher |
| E-mail(s) |
Mathew.Pletcher@pfizer.com, mpletcher@gmail.com
|
| Phone |
561-799-8832
|
| Fax |
561-799-8805
|
| Organization name |
Scripps Florida
|
| Street address |
5353 Parkside Dr
|
| City |
Jupiter |
| State/province |
FL |
| ZIP/Postal code |
33458 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
|
| Relations |
| Reanalyzed by |
GSE119085 |
