Table 1 Top PGC3 SCZ-GWAS eGenes, prioritized by EpiXcan and epigenetic annotation, as epigenetic/regulatory (NEK4, UBE2Q2L, ZNF804A) and signaling (PLC1, NAGA, FES, CALN1, SNAP91) for pathway studies
From: Functional implications of polygenic risk for schizophrenia in human neurons
EpiXcan | ExN-PrediXcan | Epigenetic annotation | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
Group | Chr | Gene | z | r2 | z | effect_size | P | ATACseq | H3K27ac | H3K4me3 | H3K27ac (neuron) |
regulatory | 3 | NEK4 | 8.64 | 0.26 | NA | NA | NA | NA | Promoter | NA | Promoter |
signaling | 2 | PLCL1 | 7.2 | 0.04 | 5.214354 | 0.4030863 | 1.84E-07 | NA | Intron | Promoter | Intron |
regulatory | 15 | UBE2Q2L | 6.89 | 0.02 | NA | NA | NA | NA | Promoter | Promoter | Promoter |
signaling | 22 | NAGA | 6.67 | 0.25 | 6.983019 | 0.1485328 | 2.89E-12 | NA | Promoter | Promoter | NA |
signaling | 15 | FES | 6.63 | 0.05 | 3.917081 | 0.2899073 | 8.96E-05 | NA | Promoter | Promoter | NA |
signaling | 7 | CALN1 | 6.57 | 0.07 | 5.356091 | 0.1714315 | 8.50E-08 | NA | Intron | Promoter | Intron |
regulatory | 2 | ZNF804A | 6.27 | 0.05 | 2.867957 | 5.1198005 | 4.13E-03 | NA | Promoter | Intron | NA |
