PMID: 11916511Mar 28, 2002Paper

Statistical and algorithmic methods for fluctuation analysis with SALVADOR as an implementation

Mathematical Biosciences
Qi Zheng

Abstract

This paper aims at removing certain long-standing impediments to more effective and widespread use of fluctuation analysis. The paper presents a method of constructing confidence intervals for mutation rates using data from fluctuation experiments. The method was inspired by a rediscovery of a little-known, not fully developed method of Lea and Coulson; substantial modifications have been made both to enhance computational efficiency and to widen the scope of the original method's applicability. A computer package named SALVADOR is presented that can be used for Monte Carlo simulation, for point and interval estimation of mutation rates, and for exploration of various hypotheses spawned by the directed mutation controversy. In addition to the maximum likelihood method, methods of considerable historical interest are also examined and included in SALVADOR to help the reader compare and assess some of the most popular methods for estimating mutation rates.

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Citations

Jul 24, 2012·Human Genetics·Noah Zaitlen, Peter Kraft
Jun 14, 2005·Mathematical Biosciences·Qi Zheng
Apr 4, 2003·Nature·Steven A Frank, Martin A Nowak
Feb 16, 2008·Nucleic Acids Research·Amy L AbdulovicSue Jinks-Robertson
Dec 17, 2009·Nucleic Acids Research·Samuel J Balin, Marilia Cascalho
Oct 11, 2011·Nucleic Acids Research·Ranjith P AnandCatherine H Freudenreich
Jul 26, 2011·Archaea : an International Microbiological Journal·Cynthia J SakofskyDennis W Grogan
Oct 25, 2011·PLoS Genetics·Alan J HerrBradley D Preston
Jun 14, 2013·PloS One·Mariela R MontiCarlos E Argaraña
Dec 19, 2013·PloS One·Bernard Ycart
Jul 6, 2014·PloS One·Bernard Ycart, Nicolas Veziris
Sep 4, 2012·Journal of Theoretical Biology·Ron Sorace, Natalia L Komarova
Jul 9, 2011·Mutation Research·Alejandro Couce, Jesús Blázquez
Dec 23, 2008·Mutation Research·Xiaowei WuMarek Kimmel
Apr 28, 2007·Mathematical Biosciences·Qi Zheng
Sep 15, 2015·Mutation Research·Qi Zheng
Oct 15, 2003·Genetic Epidemiology·Antonis C Antoniou, Douglas F Easton
Feb 27, 2007·Genetic Epidemiology·Ake Tzu-Hui Lu, Rita M Cantor
May 11, 2006·Genetic Epidemiology·Wei-Min Chen, Gonçalo R Abecasis
May 30, 2006·Genetic Epidemiology·Katrina J ScurrahStephen B Harrap
Jun 2, 2011·Environmental and Molecular Mutagenesis·Matthew S Russell, John C March
Sep 3, 2005·Mathematical Biosciences·A DewanjiS H Moolgavkar
Sep 9, 2015·Journal of Contaminant Hydrology·E A VeizagaC J Ocampo
Jan 20, 2007·FEMS Microbiology Letters·Visnja Bacun-DruzinaKresimir Gjuracic
Dec 3, 2014·Journal of Theoretical Biology·Xiaowei Wu, Hongxiao Zhu
Mar 6, 2015·PLoS Genetics·Carrie L FloodGray F Crouse
May 20, 2016·International Journal of Cancer. Journal International Du Cancer·Aung Ko WinMark A Jenkins
Nov 17, 2015·Annals of Human Genetics·Michelle M ClarkJanet S Sinsheimer
Jul 31, 2010·Molecular Ecology·Ivana JankovicNoah A Rosenberg

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