To evaluate these hypotheses, we tested whether the 10% most specific genes for each cell type were enriched in genetic association for schizophrenia controlling for the gene-level genetic association of intelligence using MAGMA. We found that the pattern of associations were largely unaffected by controlling the schizophrenia cell type association analysis for the gene-level genetic association of intelligence and vice versa (Figure S10). Similarly, we found that controlling for educational attainment had little effect on the schizophrenia associations and vice versa (Figure S11). In other words, genes driving the cell type associations of schizophrenia appear to be distinct from genes driving the cell types associations of cognitive traits.
