|
| Status |
Public on Jun 01, 2011 |
| Title |
crypt_Apc1638N/+_rep4 |
| Sample type |
RNA |
| |
|
| Source name |
crypt from 3-month-old Apc1638N/+ mice
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
genotype: Apc1638N/+
tissue: crypt
food: Ain76A
age: 3 months
|
| Treatment protocol |
Upon weaning, mice used for the dietary study were randomized into 3 groups and fed with different diets (Ain76A, NWD1 and NWD2) for 1 year; mice for the genetic study were fed with Ain76A for 3 months.
|
| Growth protocol |
All of the mice were housed in cages in a conventional animal room and had continuous access to tap water and food.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from the tissues was isolated and purified with the Qiagen RNeasy Mini Kit.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared from 5 ug total RNA following the procedures in the Affymetrix Expression Analysis Technical Manual.
|
| |
|
| Hybridization protocol |
Fragmented cRNA was hybridized on the Affymetrix Mouse Genome 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the GeneChip Scanner 3000 7G.
|
| Description |
Gene expression data from small intestine crypts of Apc1638N/+ mice.
|
| Data processing |
The CHP files generated by GCOS were imported into BRB-ArrayTools. The spots and probesets with absent calls were filtered. Signal intensities were log transformed (base 2) and global median normalization was performed.
|
| |
|
| Submission date |
May 25, 2011 |
| Last update date |
Jun 01, 2011 |
| Contact name |
DONGHAI WANG |
| E-mail(s) |
dhwang78@gmail.com, leonard.augenlicht@einstein.yu.edu
|
| Organization name |
Montefiore Medical Center
|
| Street address |
111 E210 St
|
| City |
Bronx |
| State/province |
NY |
| ZIP/Postal code |
10467 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE29538 |
Expression data of small intestine crypts and villi from mice with nutritional and genetic risk factors for intestinal tumors |
|
