S2 Text: Comparing RCP Values and Hemi-Preference Ratios from HMM
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چکیده
“Hemi-preference ratio”, a parameter inferred under our earlier analysis with a hidden-Markov model (HMM) [24], evaluates the preference of a given DNA methyltransferase for acting at hemimethylated as compared to unmethylated dyads [11], and thereby measures its preference for creating concordant dyads. Fu et al. [24,28] calculated this ratio for DNMT1, a mammalian maintenance methyltransferase. Because RCP measures the concordance preference of the entire ensemble of enzymes that give rise to methylation patterns, the hemi-preference ratio of a given enzyme and the RCP value inferred from the same data set are expected to have good agreement if that enzyme is the primary actor. The congruence between these two metrics is expected to decline with increasing contributions from other enzymes.
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