An example of a significant association in NCX, MD, and CBC is rs10785190 and GLIPR1L2, a member of the glioma pathogenesis-related 1 family of genes49. The expression differences were observed at the level of the whole transcript and exons 1 and 2, the only exons we observed to be expressed at appreciable levels in the NCX (Fig. 6b). The NCX likely had more cis-eQTLs than other regions due to its smaller variation in gene expression resulting from the averaged expression of 11 areas. Many eQTLs identified as significant in NCX also have similar associations in other regions, though they were not statistically significant after the conservative genome-wide correction (Supplementary Table 17). Thus, we have identified polymorphic regulators of transcription in different regions across development, potentially providing insights into inter-individual differences and genetic control of the brain transcriptome.
