Nano-mechanical measurements of protein-DNA interactions with a silicon nitride pulley

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Nano-mechanical measurements of protein-DNA interactions with a silicon nitride pulley

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dc.contributor.author Shon, Min Ju en_US
dc.contributor.author Cohen, Adam E. en_US
dc.date.accessioned 2016-02-01T15:46:32Z
dc.date.issued 2016 en_US
dc.identifier.citation Shon, Min Ju, and Adam E. Cohen. 2016. “Nano-mechanical measurements of protein-DNA interactions with a silicon nitride pulley.” Nucleic Acids Research 44 (1): e7. doi:10.1093/nar/gkv866. http://dx.doi.org/10.1093/nar/gkv866. en
dc.identifier.issn 0305-1048 en
dc.identifier.uri http://nrs.harvard.edu/urn-3:HUL.InstRepos:24984010
dc.description.abstract Proteins adhere to DNA at locations and with strengths that depend on the protein conformation, the underlying DNA sequence and the ionic content of the solution. A facile technique to probe the positions and strengths of protein-DNA binding would aid in understanding these important interactions. Here, we describe a ‘DNA pulley’ for position-resolved nano-mechanical measurements of protein-DNA interactions. A molecule of λ DNA is tethered by one end to a glass surface, and by the other end to a magnetic bead. The DNA is stretched horizontally by a magnet, and a nanoscale knife made of silicon nitride is manipulated to contact, bend and scan along the DNA. The mechanical profile of the DNA at the contact with the knife is probed via nanometer-precision optical tracking of the magnetic bead. This system enables detection of protein bumps on the DNA and localization of their binding sites. We study theoretically the technical requirements to detect mechanical heterogeneities in the DNA itself. en
dc.language.iso en_US en
dc.publisher Oxford University Press en
dc.relation.isversionof doi:10.1093/nar/gkv866 en
dc.relation.hasversion http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4705685/pdf/ en
dash.license LAA en_US
dc.title Nano-mechanical measurements of protein-DNA interactions with a silicon nitride pulley en
dc.type Journal Article en_US
dc.description.version Version of Record en
dc.relation.journal Nucleic Acids Research en
dash.depositing.author Cohen, Adam E. en_US
dc.date.available 2016-02-01T15:46:32Z

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