Rs1437396, a variant that was significantly associated with AD in this study, is located between two genes at a position 9.5 kb downstream from the transcription stop site of CCDC88A and 9.0 kb upstream from the transcription start site of MTIF2. The functional relevance of these two genes was evaluated23 using publicly available data (http://www.utexas.edu/research/wcaar/manuscripts.html). We also evaluated PDLIM5, METAP1, ADH5 and DPP9 for AD-associated expression changes. Ponomarev et al.23 compared the transcriptomes of brains from alcohol-dependent subjects to those of brains from control subjects using the Illumina HumanHT-12 expression array, focusing on three different brain regions: the central nucleus (CNA) and basolateral nucleus (BLA) of the amygdala and the superior frontal cortex (CTX). Post-mortem brain tissue samples were collected from 17 Australian alcoholics and 15 demographically matched controls. Diagnoses were made after consulting multiple sources of information, including medical records and next-of-kin. One array probe (ILMN_1765520) mapped to MTIF2 and one (ILMN_1811050) mapped to CCDC88A. Probes also mapped to the other loci noted above (Supplementary Table S3).
