University of Washington

Nanopore Physics Lab

Left to right: Andrew Laszlo, Henry Brinkerhoff, Dr. Brian Ross, Jon Craig, Jenny Mae Samson, Matt Noakes, Kenji Doering, Kyle Langford, Ian Nova, Dr. Jens Gundlach, Dr. Ian Derrington


Our most recent major publication is: Decoding long nanopore sequencing reads of natural DNA in the journal Nature Biotechnology. This paper demonstrated long nanopore reads of DNA that could then be used for species identification, genome scaffolding, and SNP detection. Another recent publication is: Detection and mapping of 5-methylcytosine and 5-hydroxymethylcytosine with nanopore MspA in the journal PNAS. This paper showed single molecule detection of methylcytosine on DNA using the MspA nanopore.
Our 2012 publication "Reading DNA at single-nucleotide resolution with a mutant MspA Nanopore and phi29 DNA polymerase" was featured on the cover of the April 2012 issue of Nature Biotechnology; This paper is a significant step forward towards the development of a nanopore sequencing device. It introduces a system where a DNA polymerase is used to slowly pass DNA through the MspA nanopore. The resulting signal may be used to resolve single nucleotide movement through the pore.

You can read more about these recent advances to nanopore sequencing in Science Magazine, and UW Today.

Recent Publications

Decoding long nanopore sequencing reads of natural DNA
Andrew H Laszlo, Ian M Derrington, Brian C Ross, Henry Brinkerhoff, Andrew Adey, Ian C Nova, Jonathan M Craig, Kyle W Langford, Jenny Mae Samson, Riza Daza, Kenji Doering, Jay Shendure & Jens H Gundlach
Nature Biotechnology 32 829-833 (2014). ddoi:10.1038/nbt.2950 Received: 18 April 2014 Accepted: 06 June 2014 Published online: 25 June 2014

Mutual Information between Discrete and Continuous Data Sets
Brian C. Ross
PLOS ONE 9(2): e87357. doi:10.1371/journal.pone.0087357 February 19, 2014

Detection and mapping of 5-methylcytosine and 5-hydroxymethylcytosine with nanopore MspA
Laszlo AH, Derrington IM, Brinkerhoff H, Langford KW, Nova IC, Samson JM, Bartlett JJ, Pavlenok M, Gundlach JH.
PNAS 110(47):18904-9. doi: 10.1073/pnas.1310240110. November 19,2013 (Epub October 28,2013)

Molecular Dynamics Study of MspA Arginine-Mutants Predicts Slow DNA Translocations and Ion Current Blockades Indicative of DNA Sequence.
S. Bhattacharya, I. Derrington, M. Pavlenok, M. Niederweis, J. Gundlach, and Aleksei Aksimentiev
ACS Nano 6(8) pp 6960-6968, July 2, 2012

Address: B033 Physics-Astronomy Building University of Washington 3910 15th Ave. NE Seattle, WA 98195-1560
Update: March 4, 2013