Nucleosome positioning sequence patterns as packing or regulatory
Fig 1
Similarities between dinucleotide patterns in nucleosomal DNA in mouse and human cells.
For each composite (WW, SS, RR, YY) and individual (AA, TT, CC, GG) dinucleotide a similarity between the patterns in human CD4+ cells as cd4, human apoptotic lymphocyte cells as apo and NAC cells of mouse brains in control as con, stress-resilient as res and stress-susceptible as sus is shown. The similarity is quantized by a Pearson correlation coefficient a magnitude of which is shown in each cell of correlation matrix. Two representations of similarity are depicted for each dinucleotide: a heatmap in which color-coded cells show a Pearson correlation coefficient between two profles and color provides a direction—red is positive, blue is negative. The similarity dendrograms are computed from the correlation matrix shown in heat map and illustrate hierarchical complete linkage clustering of the patterns.