7 protocols
normalization data transformation protocol
data were processed using the frma package from Bioconductor, using the frma method described in McCall MN, Bolstad BM, and Irizarry RA (2010). Frozen Robust Multi-Array Analysis (fRMA), Biostatistics, 11(2):242-253, and the barcode method (used for presence/absence calls) described in McCall MN, Uppal K, Jaffee HA, Zilliox MJ, and Irizarry RA (2011). The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes, Nucleic Acids Research, 39:D1011-5. ID_REF = VALUE = frma-normalized barcode =
array scanning protocol
affymetrix 7G gene chip scanner
hybridization protocol
affymetrix hyb protocol
labelling protocol
3 prime IVT express
sample treatment protocol
Cells were either resting, CD40 activated or EBV transformed
nucleic acid library construction protocol
Qiagen Rneasy
nucleic acid library construction protocol
Epicentre Masterpure DNA isolation kit Bisulfite converted Illumina TruSeq DNA library