Extended Data Fig. 8: SV-xQTL in LD with Schizophrenia GWAS variant.
a, locus plot showing a 5191 bp deletion that is in LD with a Schizophrenia GWAS variant (rs66691851, R2 = 0.95)6. Plot also shows genes and H3K9ac peaks near the SV. Genes and H3K9ac bars colored in red represent phenotypes found significantly associated with the deletion (SV-eQTL and SV-haQTL at FDR < 5%). b, shows the boxplot for the SV-eQTL association for the PCCB (n = 456 biologically independent samples), c, shows the boxplot for the SV-haQTL association for a peak in the promoter region of STAG1 (n = 571 biologically independent samples). In the box plots, slopes (β) and FDR adjusted P-values are shown for each association (linear regression model), the median values are shown in the central line, the box spans the first to the third quartiles and the whiskers extend 1.5 times the IQR from the box.
