|
| Status |
Public on Feb 05, 2013 |
| Title |
Control expression array-3.2 |
| Sample type |
RNA |
| |
|
| Source name |
control gene expression profiling
|
| Organism |
Mus musculus |
| Characteristics |
tissue: jejunum epithelium
strain: 129xC57BL6 mixed background
genotype/variation: littermate controls
|
| Treatment protocol |
The jejunal epithelium was harvested 3-4 days after completion of the timecourse.
|
| Growth protocol |
mice were treated with tamoxifen for 5 consecutive days (1mg/day) to inactivate the relevant TF.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the Trizol method
|
| Label |
biotin
|
| Label protocol |
and prepared for arrays using manufacturer's instructions (biotin, Affymetrix).
|
| |
|
| Hybridization protocol |
standard Affymetrix protocol
|
| Scan protocol |
standard Affymetrix protocol
|
| Description |
GSM577125
|
| 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, HNF4A KO or Cdx2-Hnf4a DKO.
|
| |
|
| Submission date |
Dec 20, 2011 |
| Last update date |
Feb 06, 2013 |
| 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 (2) |
| GSE34567 |
The transcription factor CDX2 maintains active enhancer in intestinal villus cells in vivo (expression data) |
| GSE34568 |
The transcription factor CDX2 maintains active enhancer in intestinal villus cells in vivo |
|
| Relations |
| Reanalysis of |
GSM577125 |
