Figures & data
Figure 1. (A) Sonication times and fragments lengths in base pairs (bp) for cell line DNA at three different time periods: a:5 min; b:10 min; c:15 min; (B) Sonication times and fragments lengths in base pairs (bp) for fresh tissue DNA at three different time periods: a:5min; b:10min.
Figure 2. Agarose gel intensity after Nco I digestion for the two different aliquots of the same samples processed by three different MeDIP kits: Methylamp™ Methylated DNA Capture KIT (Epigentek), Methylated-DNA IP KIT (Zymo Research) and MagMeDIP KIT TM (Diagenode). T: Fresh Tissue DNA. C: Cell line DNA. MC: Methylated DNA Control. C+: Methylated/Non-methylated Control DNA
Table 1. Efficiency and consistency of the experiments performed in triplicate using two different amounts of initial DNA: 0.5ug and 1ug. DNA was isolated from fresh tissue (M38) cell lines (H1299) and fully methylated controls (C+) for the: MagMeDIP kit (Diagenode); Methylated-DNA IP Kit (Zymo Research); and MethylAmp™ Kit (Epigentek)
Figure 3. Reaction yield for different amounts of initial DNA, 0.5 μg and 1 μg of both, fresh tissue (T) and cell lines (C), for the: (A) MagMeDIP kit (Diagenode); (B) Methylated-DNA IP Kit (Zymo Research); and (C) Methylamp™ Kit (Epigentek).
Table 2. Hybridization efficiency of MeDIP kits to methylation arrays
Figure 4. DNA methylation events per chromosome after DNA enrichment with MagMeDIP kit, hybridization to Nimblegen 385K Human Promoter plus CpG Islands arrays and bioinformatics analysis.
Figure 5. DNA methylation events per chromosome after DNA enrichment with MethylAmp MeDIP kit, hybridization to Nimblegen 385K Human Promoter plus CpG Islands arrays and bioinformatics analysis.
