Brains were imaged in cranio using MRI, cut into 0.5–1.0-cm-thick slabs and frozen. Slabs were subdivided and sectioned to allow histological staining, anatomical delineation and sample isolation using macrodissection or laser microdissection. Total RNA was isolated and microarray data were generated by Beckman Coulter Genomics on Agilent 8 × 60K custom-design arrays (AMADID no. 024915). Sample locations were mapped from histology data into MR space using Inkscape (http://www.inkscape.org) and BioImage Suite (http://www.bioimagesuite.org) (Supplementary Methods 1).
