Extended Data Fig. 5: Further analysis of polCA cell composition.
a) UMAP embedding for the scRNA-seq dataset containing cells derived from dissections of three segments of polCA and control counterparts annotated by stress levels based on Gruffi analysis. b) Sankey plot showing similar mapping of cells from individual segments of both control and polCA to stressed cells according to Gruffi’s results. c) Box plots showing the number of cells expressing FGF8 normalized by the total number of cells per segment for the three replicates. The box displays the median, the inter-quartile range, the minimum and maximum values for each segment. d) Dot plot for the top five markers for each cluster, genes with logFC> 3 are shown. LogFCs colors are scaled by gene. e) UMAP embedding plots colored by expression levels of markers of radial glia (NES, SOX2, VIM), cycling radial glia (TOP2A, MKI67), Cajal-Retzious cells (RELN), neurons (DCX, TUBB3), interneuron progenitor cells (DLX6-AS1, GAD2), LGE-derived progenitors (GSX2), MGE-derived progenitors (NKX2.1), retinal progenitor cells (RORB, VSX2), stress responsive cells (GOLGA4), endothelial cells (DCN, BGN, COL1A2), BMP responsive cells (TTR, RSPO2, LMX1A, MSX1), cilium bearing cells (PCP4, NPHP1), oligodendrocytes (OLIG1, OLIG2), astrocytes (GFAP, AQP4) and microglia (AIF1, CD68).
