|
| Status |
Public on Feb 01, 2012 |
| Title |
RQq4.2 replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
RQq4.2
|
| Organism |
Macaca mulatta |
| Characteristics |
Sex: female
age: adult
dominance rank: 3
tissue: peripheral blood mononuclear cells
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with the Qiagen RNEasy kit, including DNase I treatment, in accordance with the manufacturer's protocol. Quality control was performed with the Agilent Bioanalyzer.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
dominance ranks : 1 = high, 5 = low
RQq4.2-1
|
| Data processing |
The data were normalised using quantile normalization and variance stabilization using the lumi package in R. Probes were filtered from the full set of HT-12 probes based on the following criteria: 1) probes must have mapped (via blat) uniquely to the rhesus macaque genome (rheMac2) at 80% or greater identity; 2) probes must not have overlapped annotated segmental duplicates >1 kb in rhesus macaque; 3) probes must have exhibited evidence of detectable signal in at least one array sample (p < 0.001) compared to Illumina control probes.
|
| |
|
| Submission date |
Oct 19, 2011 |
| Last update date |
Feb 01, 2012 |
| Contact name |
Jenny Tung |
| Organization name |
Duke University
|
| Street address |
125 Science Drive
|
| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27708 |
| Country |
USA |
| |
|
| Platform ID |
GPL10558 |
| Series (2) |
| GSE33090 |
Dramatic effects of social behavior on gene regulation in rhesus macaques [Individual_expression] |
| GSE34129 |
Dramatic effects of social behavior on gene regulation in rhesus macaques |
|
