Literature DB >> 23138639

Recent advances in nanopore sequencing.

Raj D Maitra1, Jungsuk Kim, William B Dunbar.   

Abstract

The prospect of nanopores as a next-generation sequencing platform has been a topic of growing interest and considerable government-sponsored research for more than a decade. Oxford Nanopore Technologies recently announced the first commercial nanopore sequencing devices, to be made available by the end of 2012, while other companies (Life, Roche, and IBM) are also pursuing nanopore sequencing approaches. In this paper, the state of the art in nanopore sequencing is reviewed, focusing on the most recent contributions that have or promise to have next-generation sequencing commercial potential. We consider also the scalability of the circuitry to support multichannel arrays of nanopores in future sequencing devices, which is critical to commercial viability.
© 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

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Year:  2012        PMID: 23138639      PMCID: PMC3804109          DOI: 10.1002/elps.201200272

Source DB:  PubMed          Journal:  Electrophoresis        ISSN: 0173-0835            Impact factor:   3.535


  65 in total

1.  Ion-beam sculpting at nanometre length scales.

Authors:  J Li; D Stein; C McMullan; D Branton; M J Aziz; J A Golovchenko
Journal:  Nature       Date:  2001-07-12       Impact factor: 49.962

2.  Identifying single bases in a DNA oligomer with electron tunnelling.

Authors:  Shuo Huang; Jin He; Shuai Chang; Peiming Zhang; Feng Liang; Shengqin Li; Michael Tuchband; Alexander Fuhrmann; Robert Ros; Stuart Lindsay
Journal:  Nat Nanotechnol       Date:  2010-11-14       Impact factor: 39.213

3.  Single-molecule analysis of DNA-protein complexes using nanopores.

Authors:  Breton Hornblower; Amy Coombs; Richard D Whitaker; Anatoly Kolomeisky; Stephen J Picone; Amit Meller; Mark Akeson
Journal:  Nat Methods       Date:  2007-03-04       Impact factor: 28.547

4.  Noise in solid-state nanopores.

Authors:  R M M Smeets; U F Keyser; N H Dekker; C Dekker
Journal:  Proc Natl Acad Sci U S A       Date:  2008-01-09       Impact factor: 11.205

5.  Genome sequencing. Search for pore-fection.

Authors:  Elizabeth Pennisi
Journal:  Science       Date:  2012-05-04       Impact factor: 47.728

Review 6.  Nanopore analysis of nucleic acids bound to exonucleases and polymerases.

Authors:  David Deamer
Journal:  Annu Rev Biophys       Date:  2010       Impact factor: 12.981

7.  Synthesis, physicochemical properties, and hydrogen bonding of 4(5)-substituted 1-H-imidazole-2-carboxamide, a potential universal reader for DNA sequencing by recognition tunneling.

Authors:  Feng Liang; Shengqing Li; Stuart Lindsay; Peiming Zhang
Journal:  Chemistry       Date:  2012-03-29       Impact factor: 5.236

8.  Nucleobase recognition in ssDNA at the central constriction of the alpha-hemolysin pore.

Authors:  David Stoddart; Andrew J Heron; Jochen Klingelhoefer; Ellina Mikhailova; Giovanni Maglia; Hagan Bayley
Journal:  Nano Lett       Date:  2010-09-08       Impact factor: 11.189

9.  Molecular bases of cyclodextrin adapter interactions with engineered protein nanopores.

Authors:  Arijit Banerjee; Ellina Mikhailova; Stephen Cheley; Li-Qun Gu; Michelle Montoya; Yasuo Nagaoka; Eric Gouaux; Hagan Bayley
Journal:  Proc Natl Acad Sci U S A       Date:  2010-04-16       Impact factor: 11.205

10.  Mapping the position of DNA polymerase-bound DNA templates in a nanopore at 5 A resolution.

Authors:  Brett Gyarfas; Felix Olasagasti; Seico Benner; Daniel Garalde; Kate R Lieberman; Mark Akeson
Journal:  ACS Nano       Date:  2009-06-23       Impact factor: 15.881

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  32 in total

Review 1.  Bacterial genome sequencing in the clinic: bioinformatic challenges and solutions.

Authors:  W Florian Fricke; David A Rasko
Journal:  Nat Rev Genet       Date:  2013-11-26       Impact factor: 53.242

2.  Emerging trends in precision fabrication of microapertures to support suspended lipid membranes for sensors, sequencing, and beyond.

Authors:  Christopher A Baker; Craig A Aspinwall
Journal:  Anal Bioanal Chem       Date:  2014-08-15       Impact factor: 4.142

3.  Diagnostics in space: will zero gravity add weight to new advances?

Authors:  Season Wong
Journal:  Expert Rev Mol Diagn       Date:  2019-12-02       Impact factor: 5.225

4.  High-throughput RNA sequencing reveals structural differences of orthologous brain-expressed genes between western lowland gorillas and humans.

Authors:  Leonard Lipovich; Zhuo-Cheng Hou; Hui Jia; Christopher Sinkler; Michael McGowen; Kirstin N Sterner; Amy Weckle; Amara B Sugalski; Lenore Pipes; Domenico L Gatti; Christopher E Mason; Chet C Sherwood; Patrick R Hof; Christopher W Kuzawa; Lawrence I Grossman; Morris Goodman; Derek E Wildman
Journal:  J Comp Neurol       Date:  2015-08-20       Impact factor: 3.215

Review 5.  Single-molecule bioelectronics.

Authors:  Jacob K Rosenstein; Serge G Lemay; Kenneth L Shepard
Journal:  Wiley Interdiscip Rev Nanomed Nanobiotechnol       Date:  2014-12-22

6.  Error analysis of idealized nanopore sequencing.

Authors:  Christopher R O'Donnell; Hongyun Wang; William B Dunbar
Journal:  Electrophoresis       Date:  2013-08       Impact factor: 3.535

7.  SENSING DNA WITH ALTERNATING CURRENTS USING A NANOGAP SENSOR EMBEDDED IN A NANOCHANNEL DEVICE.

Authors:  Bret H Davis; Junhan Pan; Chih-Kuan Tung; Robert H Austin; Robert Riehn
Journal:  Nano Life       Date:  2013-03

8.  Real-time single-molecule electronic DNA sequencing by synthesis using polymer-tagged nucleotides on a nanopore array.

Authors:  Carl W Fuller; Shiv Kumar; Mintu Porel; Minchen Chien; Arek Bibillo; P Benjamin Stranges; Michael Dorwart; Chuanjuan Tao; Zengmin Li; Wenjing Guo; Shundi Shi; Daniel Korenblum; Andrew Trans; Anne Aguirre; Edward Liu; Eric T Harada; James Pollard; Ashwini Bhat; Cynthia Cech; Alexander Yang; Cleoma Arnold; Mirkó Palla; Jennifer Hovis; Roger Chen; Irina Morozova; Sergey Kalachikov; James J Russo; John J Kasianowicz; Randy Davis; Stefan Roever; George M Church; Jingyue Ju
Journal:  Proc Natl Acad Sci U S A       Date:  2016-04-18       Impact factor: 11.205

9.  Detecting single-abasic residues within a DNA strand immobilized in a biological nanopore using an integrated CMOS sensor.

Authors:  Jungsuk Kim; Raj D Maitra; Ken Pedrotti; William B Dunbar
Journal:  Sens Actuators B Chem       Date:  2013-02-01       Impact factor: 7.460

Review 10.  The future of genomics for developmentalists.

Authors:  Robert Plomin; Michael A Simpson
Journal:  Dev Psychopathol       Date:  2013-11
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