normalization data transformation protocol
Bioconductor software, log2 RMA normalization. ID_REF = VALUE = Log2 RMA-normalized signal
array scanning protocol
GeneChips were scanned using the Affymetrix GeneArray Scanner 3000 through the University of Washington Functional Genomics Laboratory in the Center for Ecogenetics and Environmental Health (http://depts.washington.edu/ceeh/).
The standard hybridization protocol was used as recommended by Affymetrix.
For microarray hybridization, RNA was processed for hybridization to Affymetrix Mouse Gene 1.0 ST Arrays through a core facility in the Functional Genomics Laboratory in the Center for Ecogenetics and Environmental Health at the University of Washington according to the manufacturer's instructions.
nucleic acid extraction protocol
RNA extraction was performed by the CEEH Genomics Core Laboratory followed by the manufacturer’s protocols using the GeneChip platform by Affymetrix.