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. Author manuscript; available in PMC: 2019 Apr 23.
Published in final edited form as: Nat Genet. 2018 May 21;50(6):825–833. doi: 10.1038/s41588-018-0129-5

Figure 2. Evaluation of enrichment of common variant CLOZUK schizophrenia GWA results in the KI brain scRNAseq dataset from mouse.

Figure 2.

(A) KI Level 1 brain cell types. Both LDSC and MAGMA show enrichment for pyramidal neurons (somatosensory cortex and hippocampus CA1), striatal medium spiny neurons, and cortical interneurons. The black line is the Bonferroni significance threshold (0.05/((24+149)*8). (B) Heat map of association pvalues of diverse human GWA with KI Level 1 mouse brain cell types using MAGMA (left panel) and LDSC (right panel). Bonferroni significant results are marked with red borders (0.05/((24+149)*8). Total number of cases and controls used in the GWAS are shown in the top bar plots, where numbers in red indicate the amount of genome-wide significant loci identified. The CLOZUK results do not generalize indiscriminately across human diseases/traits. In the more sensitive MAGMA analysis major depressive disorder (MDD) is primarily enriched in cortical interneurons and embryonic midbrain neurons, unlike schizophrenia. Similar but non-significant trends can be observed using LDSC.