loaded 40ul onto an 8-pack Hybridization gasket. We placed the microarray slides on top, sealed in the Hybridization Chamber, and incubated for 18 hours at 65°C. We washed the slides for 1 minute in room temperature GE Wash Buffer 1 and then for 1 minute in 37°C GE Wash Buffer 2 (Agilent 5188-5327, no triton addition). We scanned the microarrays using an Agilent Scanner C (G2565CA) using the following settings: Dye Channel = Red&Green, Scan Region = ScanArea (61×21.6mm), Scan Resolution = 3 μm. We prepared all of the samples simultaneously using homogenous master mixes to limit variability. Fragmentation and hybridization was staggered over time in batches of 3 to 4 slides (24 to 32 samples).
