|
| Status |
Public on Feb 20, 2013 |
| Title |
Jejunum sample, feed K # 3 |
| Sample type |
RNA |
| |
|
| Source name |
Jejunum sample_feed K
|
| Organism |
Mus musculus |
| Characteristics |
strain: OF1
gender: male
age: 7 wks
tissue: small intestine; jejunum
diet group: feed K
|
| Treatment protocol |
Mice were fed for three generations with either feed B, K or G. Samples were derived from seven week old male mice of the third generation without randomization regarding the day time of sampling.
|
| Growth protocol |
Mice were housed in macrolon cages III under a 12h/12h light/dark cycle. Feed and water were given ad libidum.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mice were sacrificed by vetebral dislocation. The small intestine beginning from the pylorus to the ileocaecal junction was dissected immediately and divided into two fragments of similar length. A 2 cm segment of the jejunum covering the 1 cm proximal and 1 cm distal regions around the angular point was dissected. Tissue samples were shock frozen in 2-methyl-butane (Merck, Darmstadt, Germany) cooled with liquid nitrogen. Aproximately 50 mg of jejunum were used for RNA isolation with Trizol (Invitrogen) and purification with QIAgen RNeasy Mini Kit (Qiagen). 40 µg of RNA was used for microarray analysis.
|
| Label |
AB Chemiluminescent RT Labeling Kit
|
| Label protocol |
AB Chemiluminescent RT Labeling Kit, includes, 12 Rxn Kits (Applied Biosystems, Cat No. 4359029)
|
| |
|
| Hybridization protocol |
AB1700 Chemiluminescence detection Kit, 12 Rxn, includes (Applied Biosystems, Cat No. 4342142);
|
| Scan protocol |
Instrument: 1700-Reader; Software Version 1.1.1, Firmware Version: AB 1700 Plate Reader 1.2.2
|
| Description |
E_071056_K_F3_3_J
|
| Data processing |
Software Version 1.1.1, Firmware Version: AB 1700 Plate Reader 1.2.2 using Applied default analysis settings for generation of txt.files. (Analysis Method: Primary Analysis)
Data Pre-Processing and Filtering (7.3v GeneSpring Software): values from txt-files: Assay_Normalized_Signal;
Filter on Expression Level: “CEM” ; Filter on Signal to Noise; Filter on Flag = 0
RMA (background correction, quantile normalization accross all chips in the experiment, median polish summarization); t-test
|
| |
|
| Submission date |
Feb 19, 2013 |
| Last update date |
Feb 20, 2013 |
| Contact name |
Karin Wagner |
| E-mail(s) |
[email protected]
|
| Organization name |
Medical University Graz
|
| Department |
Molecular Biology
|
| Street address |
Stiftingtalstrasse 24
|
| City |
Graz |
| State/province |
Styria |
| ZIP/Postal code |
8010 |
| Country |
Austria |
| |
|
| Platform ID |
GPL2995 |
| Series (1) |
| GSE44396 |
RNA expression analysis in a multigeneration feeding study of OF1 outbred mice |
|
