Atlas description

In total, we integrated 368 publicly available human PFC snRNA-seq datasets from 17 cohort study. After removing cells of low quality and doublets, the resulting dataset consisted of > 1 million nuclei. Due to differences of specimen sources, batch effects were evident among these data. After integration, the batch effects were satisfactorily removed. For integrated datasets, nucleus was manually categorized into 8 major cell types using canonical marker genes including excitatory (ExN) and inhibitory (InN) neurons, astrocytes (Astro), microglia (Micro), mature oligodendrocytes (MOL), oligodendrocyte progenitor cells (OPCs), endothelial cells (Endo), and pericytes (Peri). With the exception of SCZ, which was sorted by NeuN, the other datasets included all cell types.

The detailed markers for the main cell types are as follows: Neuron: RBFOX1, SNAP25, and SYT1; ExN: SLC17A and CAMK2A; InN: GAD1 and GAD2; MOL: PLP1 and MBP; OPC: OLIG1 and OLIG2; Astro: GFAP and AQP4; Micro: CSF1R and CD74; Endo: FLT1 and CLDN5; Peri: DCN and COL1A2.