|
| Status |
Public on Nov 26, 2008 |
| Title |
WBC Brahman 3 |
| Sample type |
RNA |
| |
|
| Source name |
White blood cell, peripheral circulation
|
| Organism |
Bos indicus |
| Characteristics |
Gender: female; Age: 6 months; Tissue: white blood cells; Disease state: heavy challenge with R.microplus
|
| Treatment protocol |
N/A
|
| Growth protocol |
White blood cells obtained via jugular venipuncture were collected into an EDTA vacuntainer; no growth or culture protocol was performed.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
5 ml whole blood collected into EDTA vacutained was combined with 45 ml red blood cell lysis buffer and allowed to stand at room temperature for 10 min. Sample was spun at 250 g for 10 min to pellet cells and supernatant removed. The cell pellet containing a whole white blood cell extract was resuspended in 4 ml Trizol reagent (Invitrogen) and total RNA isolation carried out according to the manufacturer's instructions. DNase treatment was carried out with Turbo DNase (Ambion) according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
As per GeneChip expression manual, performed by the Australian Genome Research Facility
|
| |
|
| Hybridization protocol |
As per GeneChip expression manual, performed by the Australian Genome Research Facility
|
| Scan protocol |
Agilent Microarray Scanner (Agilent Technologies) as per Affymetrix GeneChip manual
|
| Description |
none
|
| Data processing |
The data were analyzed with R/Bioconductor using RMA normalization. Additional parameters: background correction was convolution, quantile normalization and summarization with median polish.
|
| |
|
| Submission date |
Nov 24, 2008 |
| Last update date |
Nov 25, 2008 |
| Contact name |
Emily Kate Piper |
| E-mail(s) |
e.piper@uq.edu.au
|
| Organization name |
University of Queensland
|
| Department |
School of Veterinary Science
|
| Street address |
Seddon Buildings (Bldg 82)
|
| City |
Brisbane |
| ZIP/Postal code |
4072 |
| Country |
Australia |
| |
|
| Platform ID |
GPL2112 |
| Series (1) |
| GSE13725 |
Peripheral WBC from Brahman and Holstein-Friesian cattle infested with the cattle tick Rhipicephalus microplus |
|
