|
| Status |
Public on Oct 17, 2012 |
| Title |
Ire1 ko, biological rep3 |
| Sample type |
RNA |
| |
|
| Source name |
Ire1 ko, fed state, untreated
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Liver
gender: male
stain: mixed stain
genotype: Ire1 ko
age: 14 weeks
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol (Invitrogen) extraction of total RNA followed by cleanup using RNeasy MinElute Cleanup Kit (Qiagen) was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1.2 ug of total RNA.
|
| |
|
| Hybridization protocol |
Affymetrix Standard Protocol
|
| Scan protocol |
AGCC GeneTitan Wash and Scan
|
| Data processing |
We use the R bioconductor suite to normalize the Affymetrix data. The package we use for RMA is in the affy package and the version we currently use is 1.20.2 .
|
| |
|
| Submission date |
Aug 31, 2012 |
| Last update date |
Oct 17, 2012 |
| Contact name |
Ann-Hwee Lee |
| E-mail(s) |
ahlee@hsph.harvard.edu
|
| Organization name |
Harvard School of public health
|
| Street address |
651 Huntington Ave, FXB/205
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL11180 |
| Series (1) |
| GSE40515 |
Expression data from IRE1a or XBP1 deficient mouse liver |
|
