|
| Status |
Public on Nov 03, 2008 |
| Title |
Bovine liver at 9h, bio rep 6 |
| Sample type |
RNA |
| |
|
| Source name |
Bovine liver sample of 9 hours after LPS intra-mammary infusion
|
| Organism |
Bos taurus |
| Characteristics |
cow id: 4600
|
| Treatment protocol |
Sterile polyvinyl catheters (Micro-Renathane) were inserted into the jugular vein of the cows. The catheters were flushed with a sterile 0.9% NaCl solution containing 50 IU Na-heparin (Loevens Kemiske Fabrik, Ballerup, Denmark). At time 0 the right front quarter was infused with 200 microgram E. coli LPS (0111:B4) (Sigma-Aldrich, Brøndby, Denmark) dissolved in 10 mililiter 0.9% NaCl solution, the left front quarter serving as control was infused with 10 mililiter 0.9% NaCl solution.
|
| Growth protocol |
8 healthy, high yielding Holstein-Friesian dairy cows in their first lactation (9 to 12 weeks after calving) were chosen for this study. The udder health of the cows was evaluated based on somatic cell count (SCC) and bacteriological examinations. All cows had SCC < 100000 on both front quarters and SCC < 138000 on both behind quarters, and were free from mastitis pathogens.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA from liver biopsies was isolated using Trizol Reagent (Invitrogen, Taastrup, Denmark)
|
| Label |
biotin
|
| Label protocol |
5 microgram RNA was labeled using the SuperScript Choice System (Life Technologies) according to the manufacturer’s instructions, except for using an oligo-dT primer containing a T7 RNA polymerase promoter site. Biotin labeled cRNA was prepared using the BioArray High Yield RNA Transcript Labeling Kit (Enzo, Farmingdale NY, USA).
|
| |
|
| Hybridization protocol |
15 microgram of cRNA was loaded onto the probe array cartridge of Bovine Genome Array
|
| Scan protocol |
Probe arrays were scanned at 560 nm using a confocal laser-scanning microscope (Hewlett Packard GeneArray Scanner G2500A).
|
| Description |
A102-22
|
| Data processing |
The data were analyzed using GeneChip Robust Multi-array Analysis (GCRMA) algorithm. In this algorithm, raw intensity values are background corrected based on a model using sequence information followed by quantile normalization. The expression measure is given as log base 2 scale.
|
| |
|
| Submission date |
Mar 03, 2008 |
| Last update date |
Feb 05, 2016 |
| Contact name |
Peter Sørensen |
| E-mail(s) |
pso@mbg.au.dk
|
| Organization name |
Aarhus University
|
| Department |
Molecular Biology and Genetics
|
| Street address |
Blichers Alle 1
|
| City |
Tjele |
| ZIP/Postal code |
8830 |
| Country |
Denmark |
| |
|
| Platform ID |
GPL2112 |
| Series (1) |
| GSE10695 |
Gene expression profiling of liver from dairy cows subjected to intra-mammary LPS treatment: time course |
|
