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Literature DB >> 19369502

Fluctuation analysis CalculatOR: a web tool for the determination of mutation rate using Luria-Delbruck fluctuation analysis.

Brandon M Hall¹, Chang-Xing Ma, Ping Liang, Keshav K Singh.

Abstract

SUMMARY: The program Fluctuation AnaLysis CalculatOR (FALCOR) is a web tool designed for use with Luria-Delbrück fluctuation analysis to calculate the frequency and rate from various mutation assays in bacteria and yeast. Three calculation methods are available through this program: (i) Ma-Sandri-Sarkar Maximum Likelihood Estimator (MSS-MLE) method, (ii) Lea-Coulson method of the median (LC) and (iii) frequency. AVAILABILITY: The FALCOR rate calculator is currently accessible at http://www.mitochondria.org/protocols/FALCOR.html. This program is written as a Java Applet, requiring a web browser enabled with Sun MicroSystems' Java Virtual Machine.

Entities: Disease Species

Mesh：

Year: 2009 PMID： 19369502 PMCID： PMC2687991 DOI： 10.1093/bioinformatics/btp253

Source DB: PubMed Journal: Bioinformatics ISSN： 1367-4803 Impact factor: 6.937

11 in total

Review 1. Determining mutation rates in bacterial populations.

Authors: W A Rosche; P L Foster
Journal: Methods Date: 2000-01 Impact factor: 3.608

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

Authors: Qi Zheng
Journal: Math Biosci Date: 2002-04 Impact factor: 2.144

3. On fluctuation analysis: a new, simple and efficient method for computing the expected number of mutants.

Authors: S Sarkar; W T Ma; G H Sandri
Journal: Genetica Date: 1992 Impact factor: 1.082

4. New algorithms for Luria-Delbrück fluctuation analysis.

Authors: Qi Zheng
Journal: Math Biosci Date: 2005-08 Impact factor: 2.144

5. Methods for determining spontaneous mutation rates.

Authors: Patricia L Foster
Journal: Methods Enzymol Date: 2006 Impact factor: 1.600

6. Mutations of Bacteria from Virus Sensitivity to Virus Resistance.

Authors: S E Luria; M Delbrück
Journal: Genetics Date: 1943-11 Impact factor: 4.562

7. Analysis of gross-chromosomal rearrangements in Saccharomyces cerevisiae.

Authors: Kristina H Schmidt; Vincent Pennaneach; Christopher D Putnam; Richard D Kolodner
Journal: Methods Enzymol Date: 2006 Impact factor: 1.600

8. The distribution of the numbers of mutants in bacterial populations.

Authors: D E LEA; C A COULSON
Journal: J Genet Date: 1949-12 Impact factor: 1.166

9. Fluctuation tests: how reliable are the estimates of mutation rates?

Authors: F M Stewart
Journal: Genetics Date: 1994-08 Impact factor: 4.562

10. The Saccharomyces cerevisiae MLH3 gene functions in MSH3-dependent suppression of frameshift mutations.

Authors: H Flores-Rozas; R D Kolodner
Journal: Proc Natl Acad Sci U S A Date: 1998-10-13 Impact factor: 11.205

196 in total

1. RpoS, the stress response sigma factor, plays a dual role in the regulation of Escherichia coli's error-prone DNA polymerase IV.

Authors: Kimberly A M Storvik; Patricia L Foster
Journal: J Bacteriol Date: 2010-05-14 Impact factor: 3.490

10. The Spectrum of Replication Errors in the Absence of Error Correction Assayed Across the Whole Genome of Escherichia coli.

Authors: Brittany A Niccum; Heewook Lee; Wazim MohammedIsmail; Haixu Tang; Patricia L Foster
Journal: Genetics Date: 2018-06-15 Impact factor: 4.562

Fluctuation analysis CalculatOR: a web tool for the determination of mutation rate using Luria-Delbruck fluctuation analysis.

Review 1. Determining mutation rates in bacterial populations.

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

3. On fluctuation analysis: a new, simple and efficient method for computing the expected number of mutants.

4. New algorithms for Luria-Delbrück fluctuation analysis.

5. Methods for determining spontaneous mutation rates.

6. Mutations of Bacteria from Virus Sensitivity to Virus Resistance.

7. Analysis of gross-chromosomal rearrangements in Saccharomyces cerevisiae.

8. The distribution of the numbers of mutants in bacterial populations.

9. Fluctuation tests: how reliable are the estimates of mutation rates?

10. The Saccharomyces cerevisiae MLH3 gene functions in MSH3-dependent suppression of frameshift mutations.

1. RpoS, the stress response sigma factor, plays a dual role in the regulation of Escherichia coli's error-prone DNA polymerase IV.

2. The SMC-like protein complex SbcCD enhances DNA polymerase IV-dependent spontaneous mutation in Escherichia coli.

3. Roles of the Y-family DNA polymerase Dbh in accurate replication of the Sulfolobus genome at high temperature.

4. Stimulation of Chromosomal Rearrangements by Ribonucleotides.

5. Determinants of spontaneous mutation in the bacterium Escherichia coli as revealed by whole-genome sequencing.

6. Preferential retrotransposition in aging yeast mother cells is correlated with increased genome instability.

7. Strand-biased cytosine deamination at the replication fork causes cytosine to thymine mutations in Escherichia coli.

8. Identification of a prototypical single-stranded uracil DNA glycosylase from Listeria innocua.

9. DnaN clamp zones provide a platform for spatiotemporal coupling of mismatch detection to DNA replication.

10. The Spectrum of Replication Errors in the Absence of Error Correction Assayed Across the Whole Genome of Escherichia coli.