|
| Status |
Public on Feb 01, 2012 |
| Title |
dose 0 cGy (control), 0 hrs (control), replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
skin plug
|
| Organism |
Homo sapiens |
| Characteristics |
model system: 3D skin model (reconstructed skin tissue)
cell type(s): keratinocytes and fibroblasts
stress: control
dose: 0 cGy (control)
time: 0 hrs (control)
|
| Treatment protocol |
dose 0 cGy was control and dose 10 cGy and 100 cGy were irradiated cells
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with Trizol reagent, followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.
|
| 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 |
4578168056_A
dose 0 cGy (control), 0 hrs (control), replicate 1
|
| Data processing |
Background subtraction using BeadStudio. Quantile normalisation and variance stabilisation was done using LMGene in R.
|
| |
|
| Submission date |
May 17, 2011 |
| Last update date |
Feb 01, 2012 |
| Contact name |
David Rocke |
| E-mail(s) |
dmrocke@ucdavis.edu
|
| Phone |
(530) 752-6999
|
| Fax |
(530) 752-3239
|
| Organization name |
UC davis
|
| Department |
Biostatistics/Public health
|
| Street address |
1 shields ave
|
| City |
davis |
| State/province |
ca |
| ZIP/Postal code |
95616 |
| Country |
USA |
| |
|
| Platform ID |
GPL6883 |
| Series (1) |
| GSE29344 |
Analysis of gene co-expression networks in skin cells exposed to different doses of ionising radiation at different time points |
|
