bookmark MAM-pipeline A methodology based on classical population genetic theory, i.e. the Hardy-Weinberg theorem, that combines methylomic data from MethylCap-seq with associated SNP profiles to identify monoallelically methylated loci. The developed pipeline first compares enrichment-based sequencing data of multiple samples to the public NCBI Single Nucleotide Polymorphism (SNP)-archive (dbSNP) in order to screen the obtained non-duplicate, uniquely mappable sequence reads for SNPs. Only SNP loci with an adequately coverage and allele frequency are retained and the effect of sequencing errors is further reduced by comparing the chance of a sequencing error with the chance of detecting genuine SNPs. For each single SNP locus, the Hardy-Weinberg theorem is then applied to evaluate whether the observed frequency of samples featured by a biallelic event is lower than randomly expected.