|
Status |
Public on Feb 05, 2013 |
Title |
Cdx2 knockout expression array-1.2 |
Sample type |
RNA |
|
|
Source name |
Cdx2 knockout gene expression profiling
|
Organism |
Mus musculus |
Characteristics |
tissue: jejunum epithelium strain: 129xC57BL6 mixed background genotype/variation: Cdx2 knockout
|
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 |
GSM577126
|
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 |
GSM577126 |