Literature DB >> 14657395

Thermodynamic treatment of oligonucleotide duplex-simplex equilibria.

Richard Owczarzy1, Isard Dunietz, Mark A Behlke, Irving M Klotz, Joseph A Walder.   

Abstract

Thermodynamic formulations have been devised to obtain Delta G degrees values directly from spectroscopic data at a fixed common temperature in nucleic acid duplex-simplex melting curves. In addition, the dependence of melting on salt concentration has been expressed in terms of a stepwise stoichiometric representation, which leads to a specific equation for the partition of the added sodium ions between the different oligonucleotide forms.

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Year:  2003        PMID: 14657395      PMCID: PMC299820          DOI: 10.1073/pnas.2335948100

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  16 in total

1.  Smoothing of the thermal stability of DNA duplexes by using modified nucleosides and chaotropic agents.

Authors:  H K Nguyen; O Fournier; U Asseline; D Dupret; N T Thuong
Journal:  Nucleic Acids Res       Date:  1999-03-15       Impact factor: 16.971

2.  The application of the law of mass action to binding by proteins; interactions with calcium.

Authors:  I M KLOTZ
Journal:  Arch Biochem       Date:  1946-01

3.  DNA helix destabilization by proline and betaine: possible role in the salinity tolerance process.

Authors:  C S Rajendrakumar; T Suryanarayana; A R Reddy
Journal:  FEBS Lett       Date:  1997-06-30       Impact factor: 4.124

4.  Effect of temperature on DNA secondary structure in the absence and presence of 0.5 M tetramethylammonium chloride.

Authors:  J J Delrow; P J Heath; B S Fujimoto; J M Schurr
Journal:  Biopolymers       Date:  1998-06       Impact factor: 2.505

5.  Base composition-independent hybridization in tetramethylammonium chloride: a method for oligonucleotide screening of highly complex gene libraries.

Authors:  W I Wood; J Gitschier; L A Lasky; R M Lawn
Journal:  Proc Natl Acad Sci U S A       Date:  1985-03       Impact factor: 11.205

6.  On the application of polyelectrolyte "limiting laws" to the helix-coil transition of DNA. I. Excess univalent cations.

Authors:  G S Manning
Journal:  Biopolymers       Date:  1972       Impact factor: 2.505

7.  The binding of small cations to deoxyribonucleic acid. Nucleotide specificity.

Authors:  J T Shapiro; B S Stannard; G Felsenfeld
Journal:  Biochemistry       Date:  1969-08       Impact factor: 3.162

8.  Tetramethylammonium does not universally neutralize sequence dependent DNA stability.

Authors:  P V Riccelli; A S Benight
Journal:  Nucleic Acids Res       Date:  1993-08-11       Impact factor: 16.971

9.  Betaine can eliminate the base pair composition dependence of DNA melting.

Authors:  W A Rees; T D Yager; J Korte; P H von Hippel
Journal:  Biochemistry       Date:  1993-01-12       Impact factor: 3.162

10.  Effect of tetramethylammonium ion on the helix-to-coil transition of poly(deoxyadenylylthymidine): a nuclear magnetic resonance and calorimetric investigation.

Authors:  L A Marky; D Patel; K J Breslauer
Journal:  Biochemistry       Date:  1981-03-17       Impact factor: 3.162

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  9 in total

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Journal:  Biophys J       Date:  2007-02-26       Impact factor: 4.033

2.  Quantitative analysis of monovalent counterion binding to random-sequence, double-stranded DNA using the replacement ion method.

Authors:  Earle Stellwagen; Qian Dong; Nancy C Stellwagen
Journal:  Biochemistry       Date:  2007-01-25       Impact factor: 3.162

3.  Nucleic acid helix stability: effects of salt concentration, cation valence and size, and chain length.

Authors:  Zhi-Jie Tan; Shi-Jie Chen
Journal:  Biophys J       Date:  2005-11-18       Impact factor: 4.033

4.  Dissociation analysis in polymerase chain reaction and 1X SSC buffer as a prerequisite for selection of 13mer microarray probe sets with uniform hybridization behavior.

Authors:  Monika Pfunder; Juerg E Frey
Journal:  Mol Biotechnol       Date:  2005-01       Impact factor: 2.695

5.  Supramolecular "Click Chemistry" for Targeting in the Body.

Authors:  Christopher J Addonizio; Brant D Gates; Matthew J Webber
Journal:  Bioconjug Chem       Date:  2021-08-20       Impact factor: 6.069

6.  DNA sequencing by denaturation: principle and thermodynamic simulations.

Authors:  Ying-Ja Chen; Xiaohua Huang
Journal:  Anal Biochem       Date:  2008-10-07       Impact factor: 3.365

7.  Compatible solute influence on nucleic acids: many questions but few answers.

Authors:  Matthias Kurz
Journal:  Saline Syst       Date:  2008-06-03

8.  LILBID laser dissociation curves: a mass spectrometry-based method for the quantitative assessment of dsDNA binding affinities.

Authors:  Phoebe Young; Genia Hense; Carina Immer; Jens Wöhnert; Nina Morgner
Journal:  Sci Rep       Date:  2020-11-23       Impact factor: 4.379

9.  Development of a high sensitivity TaqMan-based PCR assay for the specific detection of Mycobacterium tuberculosis complex in both pulmonary and extrapulmonary specimens.

Authors:  Hsin-Yao Wang; Jang-Jih Lu; Ching-Yu Chang; Wen-Pin Chou; Jason Chia-Hsun Hsieh; Chien-Ru Lin; Min-Hsien Wu
Journal:  Sci Rep       Date:  2019-01-14       Impact factor: 4.379

  9 in total

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