MAB-Seq
MAB-Seq
MAB-seq allows simultaneous and quantitative mapping of both 5fC and 5caC at base resolution. This method is complimentary to caMAB-seq, a method for direct 5caC mapping.
DNA methyltransferases unmodify C to generate 5mC, which can then be oxidized by ten-eleven translocation (TET) family of 5mC-modifying enzymes. to generate 5hmC/5fC/5caC. Highly oxidized cytosine derivatives, 5fC and 5caC, are repaired by thymine DNA glycosylase (TDG) and base-excision repair (BER) to regenerate unmodified C.
Pros:
- May provide a quantitative measurement of the abundance of 5fC/5caC within CpG dyads
Cons:
- Unable to distinguish 5fC/5caC from unmodified C within a non-CpG context
- Aijo T., Huang Y., Mannerstrom H., Chavez L., Tsagaratou A., et al. (2016) A probabilistic generative model for quantification of DNA modifications enables analysis of demethylation pathways. Genome Biol 17: 49
- Neri F., Incarnato D., Krepelova A., Parlato C. and Oliviero S. (2016) Methylation-assisted bisulfite sequencing to simultaneously map 5fC and 5caC on a genome-wide scale for DNA demethylation analysis. Nat Protoc 11: 1191-1205
- Neri F., Incarnato D., Krepelova A., Rapelli S., Anselmi F., et al. (2015) Single-Base Resolution Analysis of 5-Formyl and 5-Carboxyl Cytosine Reveals Promoter DNA Methylation Dynamics. Cell Rep 10: 674-683