scRNA-seq Analysis of hMGEOs and hCOs(A) Strategy for scRNA-seq with Chromium System.(B-C) tSNE plot of single cells distinguished by (B) organoids and (C) annotation of clusters.(D) Expression patterns of markers for different cell types produced in hMGEOs and hCOs.(E) Percentage of cells from hMGEOs and hCOs in all clusters.(F) Differential expression of NKX2-1 between hMGEO- and hCO-derived interneurons. Average read count is normalized to that of hMGEO-derived interneurons.(G) Comparison of transcriptome between hMGEO- and hCO-derived interneurons. Genes with -log10(p-value) >= 100 are shown in violet (hMGEO) and blue (hCO).(H) Ratio of cells clustered into each annotation.(I) Immunostaining and quantification for OLIG1 in 81 day old sections of hMGEOs and hCOs. Mean ± SD are plotted for each condition. Sections from 8 hMGEOs and 9 hCOs were used for quantification.(J) Co-expression network of transcriptional and epigenetic regulators. Edge size represents Pearson correlation coefficient. Node size represents the number of connections. Examples of edge and node sizes are also shown in box.See also Figure S3 and S4.
