Extended Data Figure 7. OTX2 is required for maintenance of the photoreceptor signature in Group 3-MB.

(a) Experimental approach for inactivating OTX2 in Group 3-MB cells. (b) Western blot showing efficient reduction of OTX2 protein expression at day 7 in OTX2-edited D283 MB cells. (c) Volcano plot highlighting differentially expressed genes in OTX2-edited versus non-targeted D283 cells. P-values were calculated using a two-sided Wald test and were adjusted for multiple comparisons using FDR correction. (d) GSEA results showing the top up-regulated and down-regulated gene sets in OTX2-edited D283 cells compared to non-targeted controls. (e) Significant up-regulation of the RL^svz-derived UBC gene set in OTX2-edited D283 cells.(f) Significant down-regulation of the RL^svz-photoreceptor gene set in OTX2-edited D283 cells. P-values for all gene set enrichment analyses were calculated using the Monte Carlo method. (g) Pairwise analysis of recurrent genetic alterations in Group 3/4-MB. P-values were calculated using a linear regression model and adjusted for multiple comparisons using the FDR correction. (h) Smoothed expression of DDX31, BARHL1, and OTX2 in the fetal human GlutaCN/UBC lineage sorted by pseudotime.