Fig. 3: Disease association enrichment of autoencoder (AE)-derived gene sets.
From: Deriving disease modules from the compressed transcriptional space embedded in a deep autoencoder
a, b Enrichment score (−log10(P)) resulting from the hyper-geometric test between disease gene overlap of the predicted genes by the deep neural network derived by first (green), second (blue), and third (violet) hidden layers of the deep autoencoder (deepAE). As references, we show with a method based on a vanilla supervised neural network (orange) and also the hidden layer of the shallow autoencoder 512 nodes (shallowAE; magenta). MS. c The Fisher’s combined p value across all eight diseases predicted by a three-layer deep autoencoder. The dotted (brown) line corresponds to the p value, cut-off 0.05.
