Performance of Different Analytical Software Packages in Quantification of DNA Methylation by Pyrosequencing
Fig 3
LINE-1 methylation analysis of DNA samples (DD study) tested in duplicate onto. PyroMark CpG mode and AQ mode.
DNA samples (N = 28) obtained from buffy coats of patients involved in “DD study” [25]. Mean methylation percentage of 6 CpGs in the promoter of LINE-1 gene is reported. Target sequence: 108 bp of LINE-1 (GeneBank X58075.1 at position 117–224); CpGs at position 156, 131, 165, 167, 172, 182. Deviation between paired samples ranged from 0.5 to 4.2%. No red scores were assigned by the AQ mode. CpG mode assigned blue score only to the first CpG of each sample: all the other CpG in each samples received red or yellow scores.