Fig. 4
SEAM development is regulated by specific factors. (a) Temporally clustered DEGs reveal 7 distinct gene expression trends corresponding to the intermediate (Day 14) and late (Day 28) stages of ocular differentiation in comparison to undifferentiated human iPSCs (Day 0). Each row represents a single gene. Each column represents one of two biological replicates for each time point. Red and blue indicate standard deviation above and below the mean, respectively. (b, c) Overrepresentation analysis of temporally clustered DEGs identified significantly enriched (FDR < 0.05) biological processes (b) and canonical pathways (c) associated with each trend. Dot size represents the percentage of cells associated with each term. Color scale represents adjusted p values. (d) Heatmap showing the top 10 significant DE transcription factor-related genes in each trend (adjusted p-value < 0.05, LFC ≥ 1.2). Each row represents a single gene. Each column represents one of two biological replicates for each time point. Red and blue indicate standard deviation above and below the mean, respectively. KE, KEGG pathway50; PID, Pathway Interaction Database; REA, Reactome; WP, WikiPathways.
