A simple formula for obtaining markedly improved mutation rate estimates

Genetics

Volumn 180, Issue 3, 2008, Pages 1773-1778

  Gerrish, Philip ^a,b  

^a INSTITUTO GULBENKIAN DE CIÊNCIA   (Portugal)

^b UNIVERSITY OF NEW MEXICO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BAYES THEOREM; CONFIDENCE INTERVAL; MAXIMUM LIKELIHOOD METHOD; MUTANT; MUTATION RATE; MUTATIONAL ANALYSIS; PARAMETRIC TEST; PRIORITY JOURNAL; PROBABILITY; ANIMAL; BIOLOGICAL MODEL; COMPUTER SIMULATION; GENETIC VARIABILITY; GENETICS; HUMAN; MUTATION; STATISTICAL MODEL;

ANIMALS; COMPUTER SIMULATION; GENETIC VARIATION; HUMANS; LIKELIHOOD FUNCTIONS; MODELS, GENETIC; MODELS, STATISTICAL; MUTATION;

EID: 59449104244     PISSN: 00166731     EISSN: 00166731     Source Type: Journal    
DOI: 10.1534/genetics.108.091777     Document Type: Article

References (32)

1. ABRAMOWITZ, M., and I. A. STEGUN, 1965 Handbook of Mathematical Functions. Dover, New York.
2. ARMITAGE, P., 1952 The statistical theory of bacterial populations subject to mutation. J. R. Stat. Soc. B 14: 1-40.
3. ARMITAGE, P., 1953 Statistical concepts in the theory of bacterial mutation. J. Hygiene 51: 162-184.
4. ASTERIS, G., and S. SARKAR, 1996 Bayesian procedures for the estimation of mutation rates from fluctuation experiments. Genetics 142: 313-326.
5. BAILEY, N. T. J., 1964 The Elements of Stochastic Processes With Applications to the Natural Sciences. Wiley, New York.
6. BARTLETT, M. S., 1978 An Introduction to Stochastic Processes. Cambridge University Press, London.
7. CRANE, G. J., S. M. THOMAS and M. E. JONES, 1996 A modified Luria-Delbrück fluctuation assay for estimating and comparing mutation rates. Mutat. Res. Fundam. Mol. Mech. Mutagen. 354: 171-182.
8. DEWANJI, A., E. G. LUEBECK and S. H. MOOLGAVKAR, 2005 A generalized Luria-Delbrück model. Math. Biosci. 197: 140-152.
9. GURLAND, J., 1958 A generalized class of contagious distributions. Biometrics 14: 229-249.
10. JAEGER, G., and S. SARKAR, 1995 On the distribution of bacterial mutants: the effects of differential fitness of mutants and non-mutants. Genetica 96: 217-223.
11. JONES, M. E., 1993 An algorithm accounting for plating efficiency in estimating spontaneous mutation rates. Comput. Biol. Med. 23: 455-461.
12. JONES, M. E., 1994 Luria-Delbrück fluctuation experiments: accounting simultaneously for plating efficiency and differential growth rate. J. Theor. Biol. 166: 355-363.
13. JONES, M. E., S. M. THOMAS and A. ROGERS, 1994 Luria-Delbrück fluctuation experiments: design and analysis. Genetics 136: 1209-1216.
14. JONES, M. E., S. M. THOMAS and K. CLARKE, 1999 The application of a linear algebra to the analysis of mutation rates. J. Theor. Biol. 199: 11-23.
15. KENDAL, W. S., and P. FROST, 1988 Pitfalls and practice of Luria-Delbrück fluctuation analysis: a review. Cancer Res. 48: 1060-1065.
16. KEPLER, T. B., and M. OPREA, 2001 Improved inference of mutation rates: I. An integral representation for the Luria-Delbrück distribution. Theor. Popul. Biol. 59: 41-48.
17. LEA, D. E., and C. A. COULSON, 1949 The distribution of the numbers of mutants in bacterial populations. J. Genet. 49: 264-285.
18. LURIA, S. E., and M. DELBRÜCK, 1943 Mutations of bacteria from virus sensitivity to virus resistance. Genetics 28: 491-511.
19. MA, W. T., G.V. SANDRI and S. SARKAR, 1991 Novel representation of exponential functions of power series which arise in statistical mechanics and population genetics. Phys. Lett. A 155: 103-106.
20. MA, W. T., G.V. SANDRI and S. SARKAR, 1992 Analysis of the Luria-Delbrück distribution using discrete convolution powers. J. Appl. Probab. 29: 255-267.
21. MANDELBROT, B., 1974 A population birth-and-mutation process, I: explicit distributions for the number of mutants in an old culture of bacteria. J. Appl. Probab. 11: 437-444.
22. OPREA, M., and T. B. KEPLER, 2001 Improved inference of mutation rates: II. Generalization of the Luria-Delbrück distribution for realistic cell-cycle time distributions. Theor. Popul. Biol. 59: 49-59.
23. PAKES, A. G., 1993 Remarks on the Luria-Delbrück distribution. J. Appl. Probab. 30: 991-994.
24. POPE, C. F., D. M. O'SULLIVAN, T. D. MCHUGH and S. H. GILLESPIE, 2008 A practical guide to measuring mutation rates in antibiotic resistance. Antimicrob. Agents Chemother. 52: 1209-1214.
25. ROSCHE, W. A., and P. L. FOSTER, 2000 Determining mutation rates in bacterial populations. Methods 20: 4-17.
26. SARKAR, S., W. T. MA and G. V. H. SANDRI, 1992 On fluctuation analysis: a new, simple and efficient method for computing the expected number of mutants. Genetica 85: 173-179.
27. STEWART, F. M., 1991 Fluctuation analysis: the effect of plating efficiency. Genetica 84: 51-55.
28. STEWART, F. M., 1994 Fluctuation tests: How reliable are the estimates of mutation rates? Genetics 137: 1139-1146.
29. STEWART, F. M., D. M. GORDON and B. R. LEVIN, 1990 Fluctuation analysis: the probability distribution of the number of mutants under different conditions. Genetics 124: 175-185.
30. WOLFRAM RESEARCH, 2005 Mathematica Edition, Version 5.2. Wolfram Research, Champaign, IL.
31. ZHENG, Q., 1999 Progress of a half century in the study of the Luria-Delbrück distribution. Math. Biosci. 162: 1-32.
32. ZHENG, Q., 2002 Statistical and algorithmic methods for fluctuation analysis with SALVADOR as an implementation. Math. Biosci. 176: 237-252.