Biomedical Engineering Reference
In-Depth Information
Chapter 11
Nanopore-Based DNA Sequencing
and DNA Motion Control
Hongbo Peng, Binquan Luan, and Gustavo Stolovitzky
Abstract Compared to traditional Sanger's DNA sequencing methods or currently
commercialized next-generation-sequencing solutions (454, Roche, Basel; Solexa,
Illumina, San Diego; SOLiD, Applied Biosystems, Foster City, CA, USA/Agencourt,
Beverly, MA, USA; HelioScope, Helicos, Cambridge, MA, USA), nanopore-based
DNA sequencing proposals have a number of advantages that fueled intense research
efforts both in the industry and academia. If these efforts are successful, nanopore-
based DNA sequencing will enable real-time single molecular DNA sequencing
methods with little to no sample preparation. Nanopore sequencing has the potential
to reduce the cost of sequencing of a whole human genome to less than $1,000.
However, the road to conquer this technology is not without serious challenges. Two
key issues in the field are to control the DNA translocation through the nanopore and to
sense different DNA bases that compose the DNA molecule being sequenced. In this
chapter, we present an overview of some commercial DNA sequencing technologies
that will provide the context for our discussion of various nanopore DNA sequencing
approaches. We will focus our discussion on the efforts to control the DNA transloca-
tion through the pore, as a step to realize the objective of nanopore-based DNA
sequencing.
Keywords Blockade Blockage Genome Ionic current Nanopore Nanopore -
capacitor Pyrosequencing DNA ratcheting DNA sequencing DNA
transistor DNA translocation control Single stranded DNA Sequencing
method Solid-state nanopore Translocation time Transverse electronic
transport Trapping field Trapping energy Unzipping DNA
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