Single DNA molecule patterning for high-throughput epigenetic mapping

Aline Cerf, Benjamin R. Cipriany, Jaime J. Benítez, Harold G. Craighead

Research output: Contribution to journalArticlepeer-review

36 Scopus citations


We present a method for profiling the 5-methyl cytosine distribution on single DNA molecules. Our method combines soft-lithography and molecular elongation to form ordered arrays estimated to contain more than 250 000 individual DNA molecules immobilized on a solid substrate. The methylation state of the DNA is detected and mapped by binding of fluorescently labeled methyl-CpG binding domain peptides to the elongated dsDNA molecules and imaging of their distribution. The stretched molecules are fixed in their extended configuration by adsorption onto the substrate so analysis can be performed with high spatial resolution and signal averaging. We further prove this technique allows imaging of DNA molecules with different methylation states.

Original languageEnglish (US)
Pages (from-to)8073-8077
Number of pages5
JournalAnalytical Chemistry
Issue number21
StatePublished - Nov 1 2011

ASJC Scopus subject areas

  • Analytical Chemistry


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