|
| Status |
Public on Nov 17, 2010 |
| Title |
Cdx2 knockout expression array-3 |
| Sample type |
RNA |
| |
|
| Source name |
jejunum epithelium
|
| Organism |
Mus musculus |
| Characteristics |
cell type: jejunum epithelium
strain: outbred hybrid of BL6/129
genotype/variation: Cdx2 knockout
|
| Treatment protocol |
mice were treated with tamoxifen for 5 consecutive days (1mg/day) and the jejunal epithelium was harvested 4 days after completion of the timecourse.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the Trizol method and prepared for arrays using manufacturer's instructions (Affymetrix).
|
| Label |
biotin
|
| Label protocol |
standary Affy protocols
|
| |
|
| Hybridization protocol |
standary Affy protocols
|
| Scan protocol |
standary Affy protocols
|
| Description |
Cdx2 knockout gene expression profiling
|
| Data processing |
Microarray expression: RMA (bioconductor) with custom CDF (Mouse4302_Mm_REFSEQ) for background elimination and normalization. Limma for detection of differentially expressed genes between controls and CDX2 KO.
|
| |
|
| Submission date |
Aug 10, 2010 |
| Last update date |
Dec 20, 2011 |
| Contact name |
Michael P Verzi |
| Organization name |
Rutgers, the State University of New Jersey
|
| Department |
Genetics
|
| Lab |
Verzi
|
| Street address |
145 Bevier Road
|
| City |
Piscataway |
| State/province |
NJ |
| ZIP/Postal code |
08854 |
| Country |
USA |
| |
|
| Platform ID |
GPL10773 |
| Series (1) |
| GSE23436 |
Histone methylation and transcription factor binding during intestinal cell differentation |
|
| Relations |
| Reanalyzed by |
GSM851134 |
