Fig. 3.

Discovered sequence motifs associated with DNA methylation. Clustering of 128 motifs discovered by DeepCpG. Shown are the first two principal components of the motif occurrence frequencies in sequence windows (activity). Triangles denote motifs with significant (FDR <0.05) similarity to annotated motifs in the CIS-BP [42] or UniPROPE [43] databases. Marker size indicates the average activity; the estimated motif effect on methylation level is shown by colour. Sequence logos are shown for representative motifs with larger effects, including ten annotated motifs