Literature DB >> 18822300

A note on plating efficiency in fluctuation experiments.

Qi Zheng1.   

Abstract

In estimating mutation rates using the Luria-Delbrück experimental protocol, it is often assumed that all mutant cells survive the plating procedure to form visible mutant colonies. This assumption of perfect plating efficiency may not hold in certain circumstances, but none of the existing estimation methods that adjust for plating efficiency is strictly based on the likelihood principle. To ameliorate this situation, we propose likelihood based algorithms for computing point and interval estimates of mutation rates.

Mesh:

Year:  2008        PMID: 18822300     DOI: 10.1016/j.mbs.2008.09.002

Source DB:  PubMed          Journal:  Math Biosci        ISSN: 0025-5564            Impact factor:   2.144


  11 in total

1.  Chromatin Modifiers Alter Recombination Between Divergent DNA Sequences.

Authors:  Ujani Chakraborty; Beata Mackenroth; David Shalloway; Eric Alani
Journal:  Genetics       Date:  2019-06-20       Impact factor: 4.562

2.  dNTP pool levels modulate mutator phenotypes of error-prone DNA polymerase ε variants.

Authors:  Lindsey N Williams; Lisette Marjavaara; Gary M Knowels; Eric M Schultz; Edward J Fox; Andrei Chabes; Alan J Herr
Journal:  Proc Natl Acad Sci U S A       Date:  2015-03-31       Impact factor: 11.205

3.  Comparing mutation rates under the Luria-Delbrück protocol.

Authors:  Qi Zheng
Journal:  Genetica       Date:  2016-05-17       Impact factor: 1.082

4.  DNA replication error-induced extinction of diploid yeast.

Authors:  Alan J Herr; Scott R Kennedy; Gary M Knowels; Eric M Schultz; Bradley D Preston
Journal:  Genetics       Date:  2014-01-03       Impact factor: 4.562

5.  Mutations in the S-Adenosylmethionine Synthetase Genes SAM1 and SAM2 Differentially Affect Genome Stability in Saccharomyces cerevisiae.

Authors:  Kellyn M Hoffert; Kathryn S P Higginbotham; Justin T Gibson; Stuart Oehrle; Erin D Strome
Journal:  Genetics       Date:  2019-07-18       Impact factor: 4.562

6.  Decoding cell lineage from acquired mutations using arbitrary deep sequencing.

Authors:  Cheryl A Carlson; Arnold Kas; Robert Kirkwood; Laura E Hays; Bradley D Preston; Stephen J Salipante; Marshall S Horwitz
Journal:  Nat Methods       Date:  2011-11-27       Impact factor: 28.547

7.  Volatility of Mutator Phenotypes at Single Cell Resolution.

Authors:  Scott R Kennedy; Eric M Schultz; Thomas M Chappell; Brendan Kohrn; Gary M Knowels; Alan J Herr
Journal:  PLoS Genet       Date:  2015-04-13       Impact factor: 5.917

8.  rSalvador: An R Package for the Fluctuation Experiment.

Authors:  Qi Zheng
Journal:  G3 (Bethesda)       Date:  2017-12-04       Impact factor: 3.154

9.  Single-Gene Deletions Contributing to Loss of Heterozygosity in Saccharomyces cerevisiae: Genome-Wide Screens and Reproducibility.

Authors:  Kellyn M Hoffert; Erin D Strome
Journal:  G3 (Bethesda)       Date:  2019-09-04       Impact factor: 3.154

10.  bz-rates: A Web Tool to Estimate Mutation Rates from Fluctuation Analysis.

Authors:  Alexandre Gillet-Markowska; Guillaume Louvel; Gilles Fischer
Journal:  G3 (Bethesda)       Date:  2015-09-02       Impact factor: 3.154

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