Figure 5.

Comparative analysis of DNase I-hypersensitive site (DHS) landscapes in diverse samples. (A) Dendrogram of thirteen samples using DNase I accessibility data. 4 DPA, 7 DPA denotes seed coat-enriched samples; auxin denotes 7-day-old seedlings treated with auxin (SRR8903039); seedling denotes 7-day-old control seedlings (Sullivan et al., 2014); heat shock denotes 7-day-old seedlings treated with heat shock (Sullivan et al., 2014); BRZ denotes 7-day-old seedlings treated with brassinazole (SRR8903038); dark+L24h, dark+L3h, dark+L30m denote 7-day-old seedlings which were grown in the dark and exposed to a long-day light cycle for the indicated amount of time, modeling development during photomorphogenesis (h, hours; m, minutes) (GSM1289351, GSM1289355, GSM1289353, respectively) (Sullivan et al., 2014); dark seedling denotes 7-day-old dark grown seedlings (GSM1289357) (Sullivan et al., 2014); root hair denotes root hair cell samples of 7-day old seedlings (SRR8903037); root nonhair denotes nonhair root cells of 7-day-old seedlings (GSM1821072) (Sullivan et al., 2014); root denotes whole root tissue (GSM1289374) (Sullivan et al., 2014). (B) Biplot of principal component analysis of 62,729 DHSs by 13-sample matrix. Numbers in gray represent union DHSs. Insets show dynamic accessibility for two DHSs that were highly informative for distinguishing the 13 samples (i.e. these DHSs were among the most differentially accessible across all 13 samples). The upper inset shows a DHS that appears to be specific to aerial tissue; the lower inset shows a DHSs that appears to be specific to dark-grown tissue as roots are typically not exposed to light.