|
| Status |
Public on Feb 08, 2014 |
| Title |
control mice colon rep 2 |
| Sample type |
RNA |
| |
|
| Source name |
epithelium from colon of control mouse no.2
|
| Organism |
Mus musculus |
| Characteristics |
tissue: colon
genotype/variation: control
|
| Treatment protocol |
no treatment was given to mice
|
| Growth protocol |
HDAC2 conditionally mutated mice were provided by Dr EN Olson (University of Texas Southwestern Medical Center, Dallas, TX) (Montgomery et al., 2007). Floxed HDAC2 mice were crossed with villin-Cre transgenic mice to insure specific intestinal epithelial cell gene deletion (Madison et al., 2002). Genomic DNA was recovered with the Spin Doctor genomic DNA kit (Gerard Biotech, Oxford, OH). Mouse genotypes were determined with already published RT-PCR protocols (Montgomery et al., 2007). Mice were fed a normal diet in a transgenic mouse facility.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs from the colon of three control and three HDAC2 IEC-specific knockout mice were isolated with the Rneasy kit (Qiagen, Mississauga, ON, Canada). cDNA preparation and microarray assay were performed at the Microarray platform of the McGill University and Génome Quebec Innovation Centre
|
| Label |
biotin
|
| Label protocol |
Target RNA is reverse transcribed into cDNA and in-vitro transcription is performed to generate biotin-labeled cRNA for subsequent hybridization
|
| |
|
| Hybridization protocol |
Hybridized target cRNA is stained with streptavidin phycoerythrin
|
| Scan protocol |
arrays are scanned using a GeneArray Scanner at an excitation wavelength of 488nm. Light emissions at 570nm are proportional to the bound target at each oligonucleotides position on the GeneChip® array.
|
| Description |
gene expression data in colon epitelial cells from normal mice
|
| Data processing |
Data analysis, normalization average difference and expression measurements were subsequently completed with Flexarray software version 1.6.1. Background correction and normalization were assessed with a multi-array average (RMA) algorithm. Significant statistical differences were calculated with the Student’s t test, with the cut-off for statistical significance set to a p value of 0.05 or below.
|
| |
|
| Submission date |
Feb 07, 2014 |
| Last update date |
Feb 08, 2014 |
| Contact name |
Martin Lessard |
| E-mail(s) |
martin.lessard@agr.gc.ca
|
| Phone |
819-780-7220
|
| Organization name |
Agriculture and AgriFood Canada
|
| Department |
Sherbrooke Research Centre
|
| Lab |
137
|
| Street address |
2000 College
|
| City |
Sherbrooke |
| State/province |
Qc |
| ZIP/Postal code |
J1M 0C8 |
| Country |
Canada |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE54785 |
The acetylome regulators Hdac1 and Hdac2 differently modulate intestinal epithelial cell dependent homeostatic responses in experimental colitis |
|
