Skip to main content
. Author manuscript; available in PMC: 2017 Feb 3.
Published in final edited form as: Small. 2015 Dec 16;12(5):631–646. doi: 10.1002/smll.201502346

Figure 8.

Figure 8

Exposure to 10 µg/ml AuNP4 for 24 h causes global demethylation of genomic DNA. (A) Global 5mC levels measured using MethylFlash™ Methylated DNA Quantification Kit. Genomic DNA from AuNP4 treated hESCs shows a observable decrease in 5mC, though the p-value from 2 sample t.test assuming equal variances is 0.062. (B) Global 5hmC levels measured using MethylFlash™ Hydroxymethylated DNA Quantification Kit. Genomic DNA from AuNP4 treated hESCs shows a observable increase in 5hmC, though the p-value from 2 sample t.test assuming equal variances is 0.093. (C) PCA on normalized beta matrix indicating that the AuNP4 cluster seperately from the other treatments (AuNP1.5 and AuNP14) and the non-treated controls. (D) q-q plot for genome wide association analysis using fixed effect model for AuNP1.5, AuNP4, AuNP14. The results show a large number of CpG sites (red = increase, green = decrease) where called to be significant differentially methylated at a FDR corrected p-value cut-off < 0.05. (E) Further filtering by effect size (or deltabeta) ≥ abs (0.20 or 20%) result in 31,311 CpG sites all showing decrease in methylation on treatment with AuNP4.