Fig. 4

Crx mutant retinas show graded changes in photoreceptor-specific gene expression. a, b Heatmaps present FC of gene expression in P10 Crx mutants relative to that of WT age-matched controls in subsets of genes with highest cell type specificity ratios for the six retinal neurons (a) and photoreceptor-enriched genes involved in phototransduction (b). c Changes in gene expression levels (log₂ CPM) are compared for E168d2/+ (x-axis) versus E168d2neo/+ (y-axis). Highlighted genes represent 118 transcripts significantly differently expressed between the mutants (FDR ≤ 0.05, no FC cutoff; see Additional files 7 and 11 for designations). d, e Top Gene Ontology (GO) terms of down-regulated (d) and up-regulated (e) gene sets in E168d2/+ compared with E168d2neo/+