We assessed concordance between CMC DLPFC transcriptomic imputation results using summary-statistics (S-PrediXcan25) and raw genotypes (PrediXcan15) using nine European and three Asian PGC-SCZ cohorts22 for which both data types were available. Cohorts were chosen to encompass a range of case : control ratios, to test previous suggestions that accuracy is reduced in unbalanced cohorts80. Covariances for all variants included in the DLPFC predictor models were computed using S-PrediXcan25. For all European cohorts, Pearson correlation of log-10 p-values and effect sizes was above 0.95. The mean correlation was 0.963 (Supplementary Figure 11).There was no correlation between total sample size, case-control ratio, p-value or effect-size. Seven genes were removed due to discordant p-values. For the three Asian cohorts tested, the mean correlation was 0.91 (Supplementary Figure 12).
