Here we provide a detailed transcriptomic analysis of in vitro-derived human interneurons and progenitors using scRNA-seq and computational approaches. The temporal order of cell production in vitro mimicked that observed in vivo, and we determined that ~100 dpc fetal interneurons matched best with D54 hESC-derived interneurons. We found that many genes were previously implicated in neuronal migration and function are upregulated during SST cell differentiation, and that mutations in some of these genes were implicated in human neurodevelopmental and neuropsychiatric disorders. This dataset could be mined to examine additional transitional gene expression cascades, allowing for a refinement of culture techniques to produce specific cell types, or for discovery of additional developmental processes.
