Extended Data Fig. 9: DeepFlyBrain accurately predicts effects of mutations.

a–e. Analysis of cloned enhancers near (a) gish, (b) Appl, (c) Bx, (d) Pkc53e, and (e) CG15117. Accessibility profiles of the loci, DL prediction scores for the WT and mutated (mut) sequences, nucleotide importance scores and in-silico saturation mutagenesis assays, and in vivo enhancer activity of the cloned sequences are shown as in Fig. 4a, b. f, g. In vivo enhancer activity and nuclei count of the WT region and the region with mutated repressors near (f) sNPF and (g) Appl. The expected nuclei count after destroying the repressors is shown as a dashed grey line (20% increase). The box plot marks the median, upper and lower quartiles and 1.5× interquartile range (whiskers); all data points are shown (one-sided Mann-Whitney U test). Number of measured brains shown.