Methylated DNA immunoprecipitation sequencing (MeDIP-Seq) or DNA immunoprecipitation sequencing (DIP-Seq) is commonly used to study 5mC or 5hmC modification. Specific antibodies can be used to study cytosine modifications. If using 5mC-specific antibodies, methylated DNA is isolated from genomic DNA via immunoprecipitation. Anti-5mC antibodies are incubated with fragmented genomic DNA and precipitated, followed by DNA purification and sequencing. Deep sequencing provides greater genome coverage, representing the majority of immunoprecipitated methylated DNA.