Supplementary Figure 12: Confirmation and independent replication of the inverse eQTL relation between the top PD GWAS SNP rs17649553 and KANSL1-TNE1 and LRRC37A4P. | Nature Neuroscience
a, This eQTL relation between rs17649553 and KANSL1-TNE1 and LRRC37A4P was confirmed by a second method, qPCR, in laser-captured dopamine neurons. b, Moreover, the association was replicated in a second, independent population representing pyramidal neurons laser-captured from temporal cortex of 31 high-quality control brains. The geometric mean of the two standard housekeeping genes, EIF4A2 and RPL13, was used to control for input RNA in (a) and (b); P values by two-tailed Student’s t-tests. Mean ± SEM are shown. c,d, Furthermore, the rs17649553-LRRC37A4P eQTL association was confirmed in silico in a third independent population comprising 56 substantial nigra (c) as well 96 frontal cortex (d) samples from the GTEx data set, which used a polyA+ selecting protocol that would not detect KANSL1-TNE1. P values by two-tailed Student’s t-tests. Box plots as in Fig. 3b