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Single-Molecule Rapid Imaging of Linear Genomes in Nanochannel Array

Published online by Cambridge University Press:  23 June 2011

M. D. Austin ,
P. Deshpande ,
M. Requa ,
M. Kunkel ,
H. Sadowski ,
D. Bozinov ,
J. Sibert ,
S. Gallagher ,
W. Stedman  and
N. Fernandes
...Show all authors
M. D. Austin
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
P. Deshpande
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
M. Requa
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
M. Kunkel
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
H. Sadowski
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
D. Bozinov
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
J. Sibert
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
S. Gallagher
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
W. Stedman
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
N. Fernandes
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
A. Thomas
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
S. Das
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
A. Hastie
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
J. Finklestein
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
A. Marlin
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
M. Xiao
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
H. Cao
Affiliation:
Bionanomatrix, Inc. 3701 Market St, 4th floor Philadelphia, PA 19104, U.S.A.
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Abstract

Human genomic structural variation (SV) is significant factor in genome complexity, and thus has substantial implications to the cause, development and progression of genetic diseases. These SVs, ranging in size of 1kbp-1Mbp, are challenging to assess with current technologies. As such, we have developed a commercial system (nanoAnalyzer® 1000) for the rapid linear analysis of genomes at single-molecule level.

The core of our system is a nanofluidic chip consisting of an array of channels with a diameter less than 100 nm, nanofabricated on the surface of a silicon substrate. Thousands of unamplified genomic DNA molecules of 100’s kbps to several Mbps can be isolated and linearly streamed into the array for analysis in a parallel fashion. Fluorescently labeled sequence-specific signatures can then be identified and aligned to reference patterns at high resolution with custom software. This automated, multi-color imaging platform will enable a wide range of applications, such as accurate sequencing assembly, discovering genome structural variations, and uncovering epigenomic content. Nanochannel arrays promise to substantially lower the barriers of entry for single-molecule DNA analysis for scientists and clinicians, greatly impacting the advancement of molecular diagnostics, personalized medicine, and biomedical research.

Keywords

biomedicalfluidicsnanostructure
Type
Research Article
Information
MRS Online Proceedings Library (OPL) , Volume 1346: Symposium AA – Micro- and Nanofluidic Systems for Materials Synthesis, Device Assembly and Bioanalysis , 2011 , mrss11-1346-aa10-02
Copyright
Copyright © Materials Research Society 2011

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References

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