|
| Status |
Public on Dec 10, 2012 |
| Title |
THPOK-CD8a-_2_WT |
| Sample type |
RNA |
| |
|
| Source name |
WT CD4 T-cell sIEL
|
| Organism |
Mus musculus |
| Characteristics |
strain: B6-ThPOK-GFP reporter
age: 10-12 weeks
tissue: small intestine
cell type: CD4 intraepithelial T lymphocytes
cell sub-type: THPOK-CD8a-
|
| 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 nano kit for Illumina arrays
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
replicate 2
Illumina.SingleColor.MouseRef-8_V2_0_R2_11278551_A
|
| Data processing |
Gene SpringGX software version 11.5.1 was used to do percentile shift normalization. 1.Transforms the signal values to the log base 2. 2.Arranges the log transformed signal values in increasing order. 3.Computes the rank of the required percentile (Pth percentile)The data were normalised using quantile normalisation with IlluminaGUI in R
|
| |
|
| Submission date |
Nov 14, 2012 |
| Last update date |
Jan 31, 2013 |
| Contact name |
Bernardo Reis |
| E-mail(s) |
breis@rockefeller.edu
|
| Organization name |
Rockefeller University
|
| Street address |
1234 York Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platform ID |
GPL6885 |
| Series (1) |
| GSE42277 |
Transcriptional Reprogramming of Mature CD4 T helper Cells generates distinct MHC class II restricted Cytotoxic T Lymphocytes |
|
