age: 6 weeks genetic background: B6 (stroma) received B6 OT-I Rag1-/- T cells exclusion markers: CD45, Ter119, gp38, CD140a phenotype markers: CD31 separation method: MACS negative selection for CD45 followed by FACS Sex: male
Extracted molecule
total RNA
Extraction protocol
TriZol
Label
Biotin
Label protocol
Affymetrix GeneChip WT Terminal Labeling and Controls Kit
Hybridization protocol
Affymetrix WT Sense Target Labeling Kit
Scan protocol
Affymetrix GeneChip Scanner
Data processing
The datasets were pre-filtered to keep only those probesets for which a gene symbol could be found in the Affymetrix annotation. CEL files were normalized using Affymetrix Power Tools on the predefined probeset ID list mentioned above, and using the standard RMA workflow (background adjustment, quantile normalization, median polish probeset summarization). Output on 2^ scale.
