Figure 3. Highly expressed genes show a greater alteration in nucleosome occupancy at promoters upon histone mutation than poorly expressed genes.

(a) Violin plot showing distributions of correlation coefficients (r) between the mutant and wild-type strains at the promoter regions (−0.5 kb to 0.3 kb) of 5,419 genes; “+” indicates the mean of the coefficients. Lower coefficients indicate more dynamic nucleosome occupancies. (b) Transcription rate of the top 108 dynamic genes and top 108 stable genes in the wild-type strain. First, the correlation coefficients were sorted, and then the top 108 genes with high coefficients were chosen as stable genes, and the top 108 genes with low coefficients were chosen as dynamic genes. Finally, the transcription rates were compared between the dynamic and stable genes using a two-sample t-test. Data on transcription rates for wild-type strains were retrieved from the literature⁵⁴. The statistical significance of differences is indicated (–log₁₀ P-values); asterisks (*) indicate the mutants with P-values < 10⁻⁸.