Fig. 6.

The Cse4 nucleosome contains H2A. ChIP-seq profile of the difference in normalized counts between H2A and Input over all 16 centromeres after ChIP of H2A-FLAG from strain SBY2688, showing that H2A = Input (i.e., H2A − Input = 0). If H2A were absent from centromeres, H2A − Input would equal −1 (No H2A). Fragments larger than 200 bp were excluded to avoid any contribution from dinucleosomes. Similar centromeric results were obtained by plotting published data of crosslinked chromatin followed by ChIP-chip (Fig. S6C). The expected depletion of H2A at the H2A.Z-enriched Gal4 UAS is confirmed in Fig. S6A. The variability in flanking nucleosomes is probably because of the variable abundance of H2A.Z in canonical nucleosomes.