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Methods and devices for characterizing duplex nucleic acid molecules

United States Patent

August 30, 2005
View the Complete Patent at the US Patent & Trademark Office
Methods and devices are provided for characterizing a duplex nucleic acid, e.g., a duplex DNA molecule. In the subject methods, a fluid conducting medium that includes a duplex nucleic acid molecule is contacted with a nanopore under the influence of an applied electric field and the resulting changes in current through the nanopore caused by the duplex nucleic acid molecule are monitored. The observed changes in current through the nanopore are then employed as a set of data values to characterize the duplex nucleic acid, where the set of data values may be employed in raw form or manipulated, e.g., into a current blockade profile. Also provided are nanopore devices for practicing the subject methods, where the subject nanopore devices are characterized by the presence of an algorithm which directs a processing means to employ monitored changes in current through a nanopore to characterize a duplex nucleic acid molecule responsible for the current changes. The subject methods and devices find use in a variety of applications, including, among other applications, the identification of an analyte duplex DNA molecule in a sample, the specific base sequence at a single nulceotide polymorphism (SNP), and the sequencing of duplex DNA molecules.
Akeson; Mark (Santa Cruz, CA), Vercoutere; Wenonah (Santa Cruz, CA), Haussler; David (Santa Cruz, CA), Winters-Hilt; Stephen (Santa Cruz, CA)
The Regents of the University of California (Oakland, CA)
09/ 990,102
November 21, 2001
ACKNOWLEDGMENT This invention was made with United States Government support under Contract No. 22401-443720, awarded by the Department of Energy; and Grant No. GH01826, awarded by the National Institutes of Health. The United States Government has certain rights in this invention.