Microarray data from human cerebral cortex, caudate nucleus and cerebellum were gathered from nine published studies2,4-7,19-22. Raw data from these studies are available in GEO (GSE1572 (ref. 22), GSE3790 (ref. 6), GSE5392 (ref. 7), GSE7540 (ref. 19), GSE12649 (ref. 4) and GSE12654 (ref. 5) at http://www.ncbi.nlm.nih.gov/geo/) or ArrayExpress (E-AFMX-1 (ref. 21) and E-AFMX-2 (ref. 2) at http://www.ebi.ac.uk/microarray-as/ae/). Raw data from a previous study20 are available at http://email.eva.mpg.de/~khaitovi/supl1/affymetrix.html. All of the samples included in this analysis were collected post mortem from control subjects with no known history of neuropathology. CTX, CN and CB samples were analyzed using Affymetrix HG-U133A microarrays (22,215 probe sets), whereas CTX_95 samples were analyzed using Affymetrix HG-U95A/v2 microarrays (12,533 shared probe sets) (for details on microarray data processing, see Supplementary Methods).
