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Discrimination of Single Base Pair Differences Among Individual DNA Molecules Using a NanoporeThe protein toxin alpha-hemolysin form nanometer scale channels across lipid membranes. Our lab uses a single channel in an artificial lipid bilayer in a patch clamp device to capture and examine individual DNA molecules. This nanopore detector used with a support vector machine (SVM) can analyze DNA hairpin molecules on the millisecond time scale. We distinguish duplex stem length, base pair mismatches, loop length, and single base pair differences. The residual current fluxes also reveal structural molecular dynamics elements. DNA end-fraying (terminal base pair dissociation) can be observed as near full blockades, or spikes, in current. This technique can be used to investigate other biological processes dependent on DNA end-fraying, such as the processing of HIV DNA by HIV integrase.
Document ID
20030107823
Acquisition Source
Ames Research Center
Document Type
Conference Paper
Authors
Vercoutere, Wenonah
(NASA Ames Research Center Moffett Field, CA, United States)
DeGuzman, Veronica
(California Univ. Santa Cruz, CA, United States)
Date Acquired
August 21, 2013
Publication Date
September 18, 2003
Subject Category
Life Sciences (General)
Meeting Information
Meeting: Biology Colloquium: Analysis of DNA Molecule Sequence and Conformations Using a Nanopore
Location: Rohnert Park, CA
Country: United States
Start Date: September 18, 2003
Distribution Limits
Public
Copyright
Other

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