Supplementary Fig. 10: Loss of αN-catenin does not alter gene expression.
a, High Pearson correlation values across RNA-sequencing biological replicates of neural progenitor cells showing consistent expression profiles between individuals. Repeated in two independently generated iPSC-derived clones per patient. Pearson correlation was calculated by using the filtered (median FPKM >1) and log2-transformed gene expression values from each dataset (n = 12,769 genes). b, RNA-sequencing results indicate that <4% of all detected transcripts were differentially expressed in CTNNA2-mutant patient-derived NPCs, suggesting αN-catenin loss does not affect global transcription rates. c, Heat map of differentially expressed transcripts in control, MDS, and 1263A NPCs show few similarities between MDS or CTNNA2-mutated patients. d. αN-catenin does not measurably affect Wnt signaling in NPCs. qRT–PCR of Wnt target genes AXIN2, ID2, and LEF1 showed similar expression levels in CTNNA2-mutant and control NPCs. The distribution of expression is shown depicted as a box plot: top box, Q3; bottom box, Q1; median. The whiskers represent the minimum and maximum values observed for each dataset. Repeated in two independently generated iPSC clones, in triplicate. Two-tailed Student’s t test was used to calculate significance: AXIN2, P = 0.814; ID2, P = 0.525; LEF1, P = 0.319.
