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. 2017 Apr;14(4):407-410.
doi: 10.1038/nmeth.4184. Epub 2017 Feb 20.

Detecting DNA cytosine methylation using nanopore sequencing

Jared T Simpson  1   2 , Rachael E Workman  3 , P C Zuzarte  1 , Matei David  1 , L J Dursi  1 , Winston Timp  3
Affiliations

Detecting DNA cytosine methylation using nanopore sequencing

Jared T Simpson et al. Nat Methods. 2017 Apr.

Abstract

In nanopore sequencing devices, electrolytic current signals are sensitive to base modifications, such as 5-methylcytosine (5-mC). Here we quantified the strength of this effect for the Oxford Nanopore Technologies MinION sequencer. By using synthetically methylated DNA, we were able to train a hidden Markov model to distinguish 5-mC from unmethylated cytosine. We applied our method to sequence the methylome of human DNA, without requiring special steps for library preparation.

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