Table 4.
SNPs that map to enhancer regions in brain tissues
| Tissue | Pre-frontal cortex | Cerebellum | Visual cortex | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Epistatic | Non-epistatic | OR | P-value | Epistatic | Non-epistatic | OR | P-value | Epistatic | Non-epistatic | OR | P-value | |
| AC | 23/258 | 1547/19335 | 1.12 | 0.67 | 12/151 | 1364/15883 | 1.67 | 0.03 | 3/73 | 928/11304 | 0.32 | 0.14 |
| HM150 | 20/258 | 1387/19335 | 1.1 | 0.8 | 7/151 | 1200/15883 | 1.6 | 0.07 | 5/73 | 856/11304 | 0.9 | 0.99 |
| AG | 24/258 | 1649/19335 | 1.1 | 0.74 | 9/151 | 1439/15883 | 1.63 | 0.04 | 3/73 | 980/11304 | 0.45 | 0.24 |
| ITL | 21/258 | 1605/19335 | 0.98 | 1 | 8/151 | 1427/15883 | 0.57 | 0.15 | 3/73 | 959/11304 | 0.46 | 0.26 |
| GM2 | 11/258 | 816/19335 | 1.01 | 1 | 5/151 | 702/15883 | 0.74 | 0.64 | 3/73 | 455/11304 | 1.02 | 1 |
| MFL | 14/258 | 1401/19335 | 0.73 | 0.32 | 3/151 | 1219/15883 | 0.24 | 0.01 | 2/73 | 802/11304 | 0.37 | 0.22 |
| SN | 26/258 | 1362/19335 | 1.48 | 0.08 | 6/151 | 1262/15883 | 0.48 | 0.1 | 4/73 | 857/11304 | 0.7 | 0.64 |
SNPs that map to enhancer regions as measured in 7 brain tissues by the Roadmap Epigenomics Project and mined from HaploReg are given as the proportion of SNPs that map to such regions for the set of SNPs involved in epistatic interactions and those not involved in interactions. The odds ratio (OR) that a SNP involved in an epistatic interaction will also be in an enhancer region is given. Significance is assessed using a chi-squared test for goodness of fit. SNPs involved in epistatic interactions are not enriched for enhancer mappings in any of the 7 brain tissues.
AC – Anterior Caudate; HM150 – Hippocampus Middle; AG – Angular Gyrus; ITL – Inferior Temporal Lobe; GM2 - Germinal Matrix; MFL – Mid Frontal Lobe; SN – Substantia Nigra.