FAQ: What levels of conversion are typical with the control DNAs supplied in the EM-seq kit?

Two DNA controls are provided in the EM-seq kit: unmethylated lambda DNA and CpG-methylated pUC19 DNA. Up to 0.5% methylation is typically detected in unmethylated lambda, indicating a conversion efficiency of 99.5%. This is similar to the observed conversion efficiency with WGBS. For CpG-methylated pUC19, 96-98% CpG methylation is detected for both the EM-seq workflow and WGBS. As the pUC19 DNA is enzymatically methylated, it is likely that 100% methylation was not achieved and that not all CpGs are methylated.