Literature DB >> 8917524

Efficiency of DNA replication in the polymerase chain reaction.

G Stolovitzky1, G Cecchi.   

Abstract

A detailed quantitative kinetic model for the polymerase chain reaction (PCR) is developed, which allows us to predict the probability of replication of a DNA molecule in terms of the physical parameters involved in the system. The important issue of the determination of the number of PCR cycles during which this probability can be considered to be a constant is solved within the framework of the model. New phenomena of multimodality and scaling behavior in the distribution of the number of molecules after a given number of PCR cycles are presented. The relevance of the model for quantitative PCR is discussed, and a novel quantitative PCR technique is proposed.

Mesh:

Year:  1996        PMID: 8917524      PMCID: PMC24026          DOI: 10.1073/pnas.93.23.12947

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


  15 in total

1.  Kinetic characterization of the polymerase and exonuclease activities of the gene 43 protein of bacteriophage T4.

Authors:  T L Capson; J A Peliska; B F Kaboord; M W Frey; C Lively; M Dahlberg; S J Benkovic
Journal:  Biochemistry       Date:  1992-11-17       Impact factor: 3.162

Review 2.  Quantitative or semi-quantitative PCR: reality versus myth.

Authors:  F Ferre
Journal:  PCR Methods Appl       Date:  1992-08

3.  Kinetic mechanism of DNA polymerase I (Klenow fragment): identification of a second conformational change and evaluation of the internal equilibrium constant.

Authors:  M E Dahlberg; S J Benkovic
Journal:  Biochemistry       Date:  1991-05-21       Impact factor: 3.162

Review 4.  Quantitative PCR and RT-PCR in virology.

Authors:  M Clementi; S Menzo; P Bagnarelli; A Manzin; A Valenza; P E Varaldo
Journal:  PCR Methods Appl       Date:  1993-02

Review 5.  DNA amplification by the polymerase chain reaction.

Authors:  R A Gibbs
Journal:  Anal Chem       Date:  1990-07-01       Impact factor: 6.986

6.  Specific synthesis of DNA in vitro via a polymerase-catalyzed chain reaction.

Authors:  K B Mullis; F A Faloona
Journal:  Methods Enzymol       Date:  1987       Impact factor: 1.600

7.  Kinetic mechanism of DNA polymerase I (Klenow).

Authors:  R D Kuchta; V Mizrahi; P A Benkovic; K A Johnson; S J Benkovic
Journal:  Biochemistry       Date:  1987-12-15       Impact factor: 3.162

8.  Quantitative PCR: theoretical considerations with practical implications.

Authors:  L Raeymaekers
Journal:  Anal Biochem       Date:  1993-11-01       Impact factor: 3.365

9.  Molecular computation of solutions to combinatorial problems.

Authors:  L M Adleman
Journal:  Science       Date:  1994-11-11       Impact factor: 47.728

10.  Pre-steady-state kinetic analysis of processive DNA replication including complete characterization of an exonuclease-deficient mutant.

Authors:  S S Patel; I Wong; K A Johnson
Journal:  Biochemistry       Date:  1991-01-15       Impact factor: 3.162

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  34 in total

1.  A quantitative approach for polymerase chain reactions based on a hidden Markov model.

Authors:  Nadia Lalam
Journal:  J Math Biol       Date:  2008-12-05       Impact factor: 2.259

2.  A new method for quantitative real-time polymerase chain reaction data analysis.

Authors:  Xiayu Rao; Dejian Lai; Xuelin Huang
Journal:  J Comput Biol       Date:  2013-07-10       Impact factor: 1.479

3.  Quantification of 16S rRNAs in complex bacterial communities by multiple competitive reverse transcription-PCR in temperature gradient gel electrophoresis fingerprints.

Authors:  A Felske; A D Akkermans; W M De Vos
Journal:  Appl Environ Microbiol       Date:  1998-11       Impact factor: 4.792

4.  Experimental Validation of a Fundamental Model for PCR Efficiency.

Authors:  Tobias M Louw; Christine S Booth; Elsje Pienaar; Joel R Termaat; Scott E Whitney; Hendrik J Viljoen
Journal:  Chem Eng Sci       Date:  2011-04-15       Impact factor: 4.311

5.  Sources of PCR-induced distortions in high-throughput sequencing data sets.

Authors:  Justus M Kebschull; Anthony M Zador
Journal:  Nucleic Acids Res       Date:  2015-07-17       Impact factor: 16.971

6.  Sequence-dependent biophysical modeling of DNA amplification.

Authors:  Karthikeyan Marimuthu; Chaoran Jing; Raj Chakrabarti
Journal:  Biophys J       Date:  2014-10-07       Impact factor: 4.033

7.  Real-time cdPCR opens a window into events occurring in the first few PCR amplification cycles.

Authors:  David L Duewer; Margaret C Kline; Erica L Romsos
Journal:  Anal Bioanal Chem       Date:  2015-10-05       Impact factor: 4.142

8.  An information gap in DNA evidence interpretation.

Authors:  Mark W Perlin; Alexander Sinelnikov
Journal:  PLoS One       Date:  2009-12-16       Impact factor: 3.240

9.  Migration of CD11b+ accessory cells during murine lung regeneration.

Authors:  Kenji Chamoto; Barry C Gibney; Grace S Lee; Maximilian Ackermann; Moritz A Konerding; Akira Tsuda; Steven J Mentzer
Journal:  Stem Cell Res       Date:  2013-01-05       Impact factor: 2.020

10.  Amplification efficiency: linking baseline and bias in the analysis of quantitative PCR data.

Authors:  J M Ruijter; C Ramakers; W M H Hoogaars; Y Karlen; O Bakker; M J B van den Hoff; A F M Moorman
Journal:  Nucleic Acids Res       Date:  2009-02-22       Impact factor: 16.971

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