|
| Status |
Public on Aug 01, 2011 |
| Title |
Trachomatous trichiasis with inflammation sample #20 |
| Sample type |
RNA |
| |
|
| Source name |
conjunctival surface swab
|
| Organism |
Homo sapiens |
| Characteristics |
disease state: Trichiasis with inflammation
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from conjunctival swabs that had been stored in RNAlater, using the Rneasy MICRO kit (Qiagen) with DNAse treatment - as per manufacturers instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion TotalPrep kit for Illumina arrays
|
| |
|
| Hybridization protocol |
Standard Illumina hybridisation protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
TTI-20
|
| Data processing |
The data were filtered, transformed (vst) and normalised using quantile normalisation with the lumi package in R. The data were filtered before transformation and normalisation. The filter selected probes with at least one sample successfully detected (detection p-value <0.01 for at least one sample).
|
| |
|
| Submission date |
Aug 19, 2010 |
| Last update date |
Aug 01, 2011 |
| Contact name |
Matthew Burton |
| Organization name |
London School of Hygiene and Tropical Medicine
|
| Street address |
Keppel Street
|
| City |
London |
| ZIP/Postal code |
WC1E 7HT |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL6884 |
| Series (1) |
| GSE23705 |
The conjunctival transcriptome in scarring trachoma |
|
