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

被引：57

作者：

Zheng, Q ^{[1
]}

机构：

[1] Natl Ctr Toxicol Res, Div Biometry & Risk Assessment, Jefferson, AR 72079 USA

来源：

MATHEMATICAL BIOSCIENCES | 2002年 / 176卷 / 02期

关键词：

fluctuation experiment; directed mutation controversy; Fisher's information; estimation of mutation rate;

D O I：

10.1016/S0025-5564(02)00087-1

中图分类号：

Q [生物科学];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

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. (C) 2002 Elsevier Science Inc. All rights reserved.

引用

页码：237 / 252

页数：16

共 29 条

[21] ON FLUCTUATION ANALYSIS - A NEW, SIMPLE AND EFFICIENT METHOD FOR COMPUTING THE EXPECTED NUMBER OF MUTANTS [J].

SARKAR, S ;

MA, WT ;

SANDRI, GV .

GENETICA, 1992, 85 (02) :173-179

[22] Evolution of high mutation rates in experimental populations of E-coli [J].

Sniegowski, PD ;

Gerrish, PJ ;

Lenski, RE .

NATURE, 1997, 387 (6634) :703-705

[23] MUTATION AND ADAPTATION - THE DIRECTED MUTATION CONTROVERSY IN EVOLUTIONARY PERSPECTIVE [J].

SNIEGOWSKI, PD ;

LENSKI, RE .

ANNUAL REVIEW OF ECOLOGY AND SYSTEMATICS, 1995, 26 :553-578

[24]

STEWART FM, 1994, GENETICS, V137, P1139

[25]

STEWART FM, 1990, GENETICS, V124, P175

[26] DIFFERENCES IN THE RATES OF GENE AMPLIFICATION IN NONTUMORIGENIC AND TUMORIGENIC CELL-LINES AS MEASURED BY LURIA-DELBRUCK FLUCTUATION ANALYSIS [J].

TLSTY, TD ;

MARGOLIN, BH ;

LUM, K .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1989, 86 (23) :9441-9445

[27]

WOLFRAM S, 1999, MATH BOOK

[28]

Zeyl C, 2001, GENETICS, V157, P53

[29] Progress of a half century in the study of the Luria-Delbruck distribution [J].

Zheng, Q .

MATHEMATICAL BIOSCIENCES, 1999, 162 (1-2) :1-32

← 1 2 3 →