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What can be observed in real time PCR and when does it show?

Real time, or quantitative, PCR typically starts from a very low concentration of initial DNA strands. During iterations the numbers increase, first essentially by doubling, later predominantly in a linear way. Observation of the number of DNA molecules in the experiment becomes possible only when i...

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Autores principales: Chigansky, Pavel, Jagers, Peter, Klebaner, Fima C.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Berlin Heidelberg 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5772144/
https://www.ncbi.nlm.nih.gov/pubmed/28667372
http://dx.doi.org/10.1007/s00285-017-1154-1
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author Chigansky, Pavel
Jagers, Peter
Klebaner, Fima C.
author_facet Chigansky, Pavel
Jagers, Peter
Klebaner, Fima C.
author_sort Chigansky, Pavel
collection PubMed
description Real time, or quantitative, PCR typically starts from a very low concentration of initial DNA strands. During iterations the numbers increase, first essentially by doubling, later predominantly in a linear way. Observation of the number of DNA molecules in the experiment becomes possible only when it is substantially larger than initial numbers, and then possibly affected by the randomness in individual replication. Can the initial copy number still be determined? This is a classical problem and, indeed, a concrete special case of the general problem of determining the number of ancestors, mutants or invaders, of a population observed only later. We approach it through a generalised version of the branching process model introduced in Jagers and Klebaner (J Theor Biol 224(3):299–304, 2003. doi:10.1016/S0022-5193(03)00166-8), and based on Michaelis–Menten type enzyme kinetical considerations from Schnell and Mendoza (J Theor Biol 184(4):433–440, 1997). A crucial role is played by the Michaelis–Menten constant being large, as compared to initial copy numbers. In a strange way, determination of the initial number turns out to be completely possible if the initial rate v is one, i.e all DNA strands replicate, but only partly so when [Formula: see text] , and thus the initial rate or probability of succesful replication is lower than one. Then, the starting molecule number becomes hidden behind a “veil of uncertainty”. This is a special case, of a hitherto unobserved general phenomenon in population growth processes, which will be adressed elsewhere.
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spelling pubmed-57721442018-01-30 What can be observed in real time PCR and when does it show? Chigansky, Pavel Jagers, Peter Klebaner, Fima C. J Math Biol Article Real time, or quantitative, PCR typically starts from a very low concentration of initial DNA strands. During iterations the numbers increase, first essentially by doubling, later predominantly in a linear way. Observation of the number of DNA molecules in the experiment becomes possible only when it is substantially larger than initial numbers, and then possibly affected by the randomness in individual replication. Can the initial copy number still be determined? This is a classical problem and, indeed, a concrete special case of the general problem of determining the number of ancestors, mutants or invaders, of a population observed only later. We approach it through a generalised version of the branching process model introduced in Jagers and Klebaner (J Theor Biol 224(3):299–304, 2003. doi:10.1016/S0022-5193(03)00166-8), and based on Michaelis–Menten type enzyme kinetical considerations from Schnell and Mendoza (J Theor Biol 184(4):433–440, 1997). A crucial role is played by the Michaelis–Menten constant being large, as compared to initial copy numbers. In a strange way, determination of the initial number turns out to be completely possible if the initial rate v is one, i.e all DNA strands replicate, but only partly so when [Formula: see text] , and thus the initial rate or probability of succesful replication is lower than one. Then, the starting molecule number becomes hidden behind a “veil of uncertainty”. This is a special case, of a hitherto unobserved general phenomenon in population growth processes, which will be adressed elsewhere. Springer Berlin Heidelberg 2017-06-30 2018 /pmc/articles/PMC5772144/ /pubmed/28667372 http://dx.doi.org/10.1007/s00285-017-1154-1 Text en © The Author(s) 2017 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.
spellingShingle Article
Chigansky, Pavel
Jagers, Peter
Klebaner, Fima C.
What can be observed in real time PCR and when does it show?
title What can be observed in real time PCR and when does it show?
title_full What can be observed in real time PCR and when does it show?
title_fullStr What can be observed in real time PCR and when does it show?
title_full_unstemmed What can be observed in real time PCR and when does it show?
title_short What can be observed in real time PCR and when does it show?
title_sort what can be observed in real time pcr and when does it show?
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5772144/
https://www.ncbi.nlm.nih.gov/pubmed/28667372
http://dx.doi.org/10.1007/s00285-017-1154-1
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