Fig. 4: Zfp266 KO in MEFs results in chromatin opening at the SINE-containing ZFP266 binding sites.

A ZFP266 DamID-seq signals in MEFs, ATAC-seq signals in MEFs, +72 h of reprogramming, and iPSCs at the ZFP266 DamID-seq peak loci. B Motif enrichment analysis with HOMER on ZFP266 DamID-seq peaks. C Significance and fold enrichment ratio of transposable element (TE) families overlap with Dam-ZFP266 peaks. Green dots indicate significantly enriched SINEs, blue dots indicate other significantly enriched TEs. The p-values were calculated by the cumulative hypergeometric distribution (a one-tailed test) in B and C. D Number of ZFP266 DamID-seq peaks that overlap with TEs. E De novo motif discovery analysis with MEME on ZFP266 DamID-seq peaks. The identified motifs correspond to parts of the B1 SINE consensus sequence, indicated by matching colors. F Volcano plot of Zfp266 KO vs Wt MEF ATAC-seq. Green and red dots indicate more open regions (MORs) and more closed regions in Zfp266 KO MEFs, respectively (FDR < 0.05). G ATAC-seq and ZFP266 DamID-seq signals in the Zfp266 KO MEF MORs, overlapped (top) and non-overlapped (bottom) with ZFP266 DamID peaks in MEFs. H Motif enrichment analysis on Zfp266 KO MEF MORs. Percentages of MORs containing each motif and AP-1 motif are indicated. I De novo motif discovery analysis on Zfp266 KO MEF MORs. The top five most significant motifs correspond to parts of the B1 SINE consensus sequence, indicated by matching colors. J Significance and fold enrichment ratio of transposable element (TE) families overlap with Zfp266 KO MEF MORs. Green dots indicate significantly enriched SINEs, blue dots indicate other significantly enriched TEs. The p-values were calculated by the cumulative hypergeometric distribution. K Number of Zfp266 KO MEF MORs that overlap with TEs. L Examples of Zfp266 KO MEF MORs (Blue) with SINE (black), overlapping with ZFP266 DamID-seq peaks (red).