The Influence of Hydroxylation on Maintaining CpG Methylation Patterns: A Hidden Markov Model Approach
Fig 4
Schematic outline of the conversion of Cytosine, 5mC and 5hmC during BS and oxBS treatment and after sequencing: In the bisulfite reaction a cytosine (C) is converted to uracil (U), whereas 5mC and 5hmC remain untouched.
In the oxidative bisulfite sequencing only 5mC remains untouched and cytosine as well as 5hmC is converted to uracil (U). The conversion errors are illustrated as dashed red arrows and c, d, e, f are the conversion probabilities.