Literature DB >> 21772582

Density fluctuations dispersion relationship for a polymer confined to a nanotube.

Joshua H Carpenter1, Alena Karpusenko, Junhan Pan, Shuang Fang Lim, Robert Riehn.   

Abstract

DNA confined to rigid nanotubes shows density fluctuations around its stretched equilibrium conformation. We report an experimental investigation of the length-scale dependent dynamics of these density fluctuations. We find that for highly elongated molecules a Rouse description is consistent with observations at sufficiently large length scales. We further find that for strongly fluctuating molecules, or short length scales, such Rouse modes cannot be detected due to strong mixing of fluctuation modes.

Entities:  

Year:  2011        PMID: 21772582      PMCID: PMC3138799          DOI: 10.1063/1.3602922

Source DB:  PubMed          Journal:  Appl Phys Lett        ISSN: 0003-6951            Impact factor:   3.791


  12 in total

1.  From the Cover: The dynamics of genomic-length DNA molecules in 100-nm channels.

Authors:  Jonas O Tegenfeldt; Christelle Prinz; Han Cao; Steven Chou; Walter W Reisner; Robert Riehn; Yan Mei Wang; Edward C Cox; James C Sturm; Pascal Silberzan; Robert H Austin
Journal:  Proc Natl Acad Sci U S A       Date:  2004-07-13       Impact factor: 11.205

2.  A nanofluidic railroad switch for DNA.

Authors:  Robert Riehn; Robert H Austin; James C Sturm
Journal:  Nano Lett       Date:  2006-09       Impact factor: 11.189

3.  Unexpected relaxation dynamics of a self-avoiding polymer in cylindrical confinement.

Authors:  Axel Arnold; Behnaz Bozorgui; Daan Frenkel; Bae-Yeun Ha; Suckjoon Jun
Journal:  J Chem Phys       Date:  2007-10-28       Impact factor: 3.488

4.  Nanoconfinement-enhanced conformational response of single DNA molecules to changes in ionic environment.

Authors:  Walter Reisner; Jason P Beech; Niels B Larsen; Henrik Flyvbjerg; Anders Kristensen; Jonas O Tegenfeldt
Journal:  Phys Rev Lett       Date:  2007-08-01       Impact factor: 9.161

5.  Compression and free expansion of single DNA molecules in nanochannels.

Authors:  Christian Hermann Reccius; John Thomas Mannion; Joshua David Cross; H G Craighead
Journal:  Phys Rev Lett       Date:  2005-12-21       Impact factor: 9.161

6.  Internal mechanical response of a polymer in solution.

Authors:  Adam E Cohen; W E Moerner
Journal:  Phys Rev Lett       Date:  2007-03-14       Impact factor: 9.161

7.  Principal-components analysis of shape fluctuations of single DNA molecules.

Authors:  Adam E Cohen; W E Moerner
Journal:  Proc Natl Acad Sci U S A       Date:  2007-05-11       Impact factor: 11.205

8.  Longitudinal response of confined semiflexible polymers.

Authors:  Florian Thüroff; Benedikt Obermayer; Erwin Frey
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2011-02-22

9.  Shape anisotropy of a single random-walk polymer.

Authors:  C Haber; S A Ruiz; D Wirtz
Journal:  Proc Natl Acad Sci U S A       Date:  2000-09-26       Impact factor: 11.205

10.  The conformational dynamics of lambda-DNA in the anti-Brownian electrokinetic trap: Brownian dynamics and Monte Carlo simulation.

Authors:  Ajey Dambal; Eric S G Shaqfeh
Journal:  J Chem Phys       Date:  2009-12-14       Impact factor: 3.488

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  7 in total

1.  Fluctuation modes of nanoconfined DNA.

Authors:  Alena Karpusenko; Joshua H Carpenter; Chunda Zhou; Shuang Fang Lim; Junhan Pan; Robert Riehn
Journal:  J Appl Phys       Date:  2012-01-17       Impact factor: 2.546

2.  Measurements of DNA barcode label separations in nanochannels from time-series data.

Authors:  Julian Sheats; Jeffrey G Reifenberger; Han Cao; Kevin D Dorfman
Journal:  Biomicrofluidics       Date:  2015-12-29       Impact factor: 2.800

3.  Chromatin modification mapping in nanochannels.

Authors:  Shuang Fang Lim; Alena Karpusenko; Ansel L Blumers; Diana E Streng; Robert Riehn
Journal:  Biomicrofluidics       Date:  2013-11-21       Impact factor: 2.800

4.  Probing transient protein-mediated DNA linkages using nanoconfinement.

Authors:  Maedeh Roushan; Parminder Kaur; Alena Karpusenko; Preston J Countryman; Carlos P Ortiz; Shuang Fang Lim; Hong Wang; Robert Riehn
Journal:  Biomicrofluidics       Date:  2014-06-12       Impact factor: 2.800

5.  DNA Brushing Shoulders: Targeted Looping and Scanning of Large DNA Strands.

Authors:  Zubair Azad; Maedeh Roushan; Robert Riehn
Journal:  Nano Lett       Date:  2015-07-13       Impact factor: 11.189

6.  Modeling the relaxation of internal DNA segments during genome mapping in nanochannels.

Authors:  Aashish Jain; Julian Sheats; Jeffrey G Reifenberger; Han Cao; Kevin D Dorfman
Journal:  Biomicrofluidics       Date:  2016-10-13       Impact factor: 2.800

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
  7 in total

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