Literature DB >> 17369420

Multiplex SNP discrimination.

Daniel J Fish, M Todd Horne, Robert P Searles, Greg P Brewood, Albert S Benight.   

Abstract

Multiplex hybridization reactions of perfectly matched duplexes and duplexes containing a single basepair mismatch (SNPs) were investigated on DNA microarrays. Effects of duplex length, G-C percentage, and relative position of the SNP on duplex hybridization and SNP resolution were determined. Our theoretical model of multiplex hybridization accurately predicts observed results and implicates target concentration as a critical variable in multiplex SNP detection.

Mesh：

Year:  2007        PMID： 17369420      PMCID： PMC1853129          DOI： 10.1529/biophysj.107.105320

Source DB:  PubMed          Journal:  Biophys J        ISSN： 0006-3495            Impact factor:   4.033


  6 in total

1.  A competitive kinetic model of nucleic acid surface hybridization in the presence of point mutants.

Authors:  J Bishop; S Blair; A M Chagovetz
Journal:  Biophys J       Date:  2005-11-11       Impact factor: 4.033

2.  Discrimination between perfect and mismatched duplexes with oligonucleotide gel microchips: role of thermodynamic and kinetic effects during hybridization.

Authors:  N V Sorokin; V R Chechetkin; M A Livshits; S V Pan'kov; M Y Donnikov; D A Gryadunov; S A Lapa; A S Zasedatelev
Journal:  J Biomol Struct Dyn       Date:  2005-06

3.  Competitive hybridization kinetics reveals unexpected behavior patterns.

Authors:  Ying Zhang; Daniel A Hammer; David J Graves
Journal:  Biophys J       Date:  2005-08-26       Impact factor: 4.033

4.  Statistical thermodynamics and kinetics of DNA multiplex hybridization reactions.

Authors:  M T Horne; D J Fish; A S Benight
Journal:  Biophys J       Date:  2006-09-08       Impact factor: 4.033

5.  Competitive displacement of DNA during surface hybridization.

Authors:  J Bishop; C Wilson; A M Chagovetz; S Blair
Journal:  Biophys J       Date:  2006-10-20       Impact factor: 4.033

6.  Kinetics of hybridization on surface oligonucleotide microchips: theory, experiment, and comparison with hybridization on gel-based microchips.

Authors:  N V Sorokin; V R Chechetkin; S V Pan'kov; O G Somova; M A Livshits; M Y Donnikov; A Y Turygin; V E Barsky; A S Zasedatelev
Journal:  J Biomol Struct Dyn       Date:  2006-08
  6 in total
  8 in total

1.  Kinetics of multiplex hybridization: mechanisms and implications.

Authors:  J Bishop; A M Chagovetz; S Blair
Journal:  Biophys J       Date:  2007-11-09       Impact factor: 4.033

2.  Optimized detection of sequence variation in heterozygous genomes using DNA microarrays with isothermal-melting probes.

Authors:  David Gresham; Bo Curry; Alexandra Ward; D Benjamin Gordon; Leonardo Brizuela; Leonid Kruglyak; David Botstein
Journal:  Proc Natl Acad Sci U S A       Date:  2010-01-08       Impact factor: 11.205

3.  Salt concentration effects on equilibrium melting curves from DNA microarrays.

Authors:  J Fuchs; J-B Fiche; A Buhot; R Calemczuk; T Livache
Journal:  Biophys J       Date:  2010-09-22       Impact factor: 4.033

Review 4.  Real-time DNA microarrays: reality check.

Authors:  Alexander Chagovetz; Steve Blair
Journal:  Biochem Soc Trans       Date:  2009-04       Impact factor: 5.407

5.  Label-free microarray imaging for direct detection of DNA hybridization and single-nucleotide mismatches.

Authors:  Emre Ozkumur; Sunmin Ahn; Ayça Yalçin; Carlos A Lopez; Elif Cevik; Rostem J Irani; Charles DeLisi; Marcella Chiari; M Selim Unlü
Journal:  Biosens Bioelectron       Date:  2010-01-04       Impact factor: 10.618

6.  Low-Cost Platform for Multiplexed Electrochemical Melting Curve Analysis.

Authors:  Nassif Chahin; Santiago Escobar-Nassar; Johann Osma; Abdulaziz S Bashammakh; Abdulrahman O AlYoubi; Mayreli Ortiz; Ciara K O'Sullivan
Journal:  ACS Meas Sci Au       Date:  2021-11-22

7.  DNA multiplex hybridization on microarrays and thermodynamic stability in solution: a direct comparison.

Authors:  Daniel J Fish; M Todd Horne; Greg P Brewood; Jim P Goodarzi; Saba Alemayehu; Ashwini Bhandiwad; Robert P Searles; Albert S Benight
Journal:  Nucleic Acids Res       Date:  2007-10-18       Impact factor: 16.971

8.  Strong position-dependent effects of sequence mismatches on signal ratios measured using long oligonucleotide microarrays.

Authors:  Catriona Rennie; Harry A Noyes; Stephen J Kemp; Helen Hulme; Andy Brass; David C Hoyle
Journal:  BMC Genomics       Date:  2008-07-03       Impact factor: 3.969
  8 in total

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