Methylated DNA Immunoprecipitation/DNA Immunoprecipitation Followed by High-Throughput Sequencing

MeDIP-seq is used to study 5mC modification (Weber et al., 2005). It is based on MeDIP, originally developed as an approach for immunocapturing methylated DNA followed by microarray analysis (Weber et al., 2005). A variation on this method detects 5hmC to provide a more complete view of cytosine modifications (see hMeDIP-seq) (Xu et al., 2011). In this method, anti-5mC antibodies are used to isolate methylated DNA from fragmented gDNA via immunoprecipitation. The isolated DNA fragments are purified and used to prepare a sequencing library. Deep sequencing provides greater genome coverage, representing the majority of immunoprecipitated methylated DNA.


  • Covers CpG and non-CpG 5mC throughout the genome
  • Covers 5mC in dense and less dense repeat regions
  • Antibody-based selection is independent of sequence and does not enrich for 5hmC due to antibody specificity
  • Can be a cost-effective approach when single-base resolution is not desired (Yong et al., 2016)


  • Base-pair resolution is lower (~150 bp), as opposed to single-base resolution with other methods
  • Antibody specificity and selectivity must be tested to avoid nonspecific interaction
  • Biased toward hypermethylated regions


Illumina Library prep and Array Kit Selector


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