Mathematical expressions useful in the construction, description and evaluation of protein libraries

被引：86

作者：

Bosley, AD ^{[1
]}

Ostermeier, M ^{[1
]}

机构：

[1] Johns Hopkins Univ, Dept Chem & Biomol Engn, Baltimore, MD 21218 USA

来源：

BIOMOLECULAR ENGINEERING | 2005年 / 22卷 / 1-3期

基金：

美国国家科学基金会;

关键词：

protein engineering; directed evolution; random mutagenesis; cassette mutagenesis; genetic libraries;

D O I：

10.1016/j.bioeng.2004.11.002

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

The creation of protein libraries by random mutagenesis and cassette mutagenesis has proven to be a successful method of protein engineering. Appropriate statistical analysis is important for the proper construction of these libraries and even more important for the interpretation of data from these libraries. We present simple mathematical expressions useful in the creation and evaluation of such libraries. These equations are useful in estimating the distribution of mutations, the degeneracy of the library and the frequency of a particular clone in the library. In addition, general equations addressing the probability that a particular clone is in a library, the probability that a library is complete, and as the consequences of retransformation of the library on these probabilities are presented. (C) 2005 Elsevier B.V. All rights reserved.

引用

页码：57 / 61

页数：5

共 9 条

[1]

CALDWELL RC, 1995, PCR PRIMER LAB MANUA

[2]

Clarke L, 1979, Methods Enzymol, V68, P396

[3] Modeling DNA mutation and recombination for directed evolution experiments [J].

Moore, GL ;

Maranas, CD .

JOURNAL OF THEORETICAL BIOLOGY, 2000, 205 (03) :483-503

[4] User-friendly algorithms for estimating completeness and diversity in randomized protein-encoding libraries [J].

Patrick, WM ;

Firth, AE ;

Blackburn, JM .

PROTEIN ENGINEERING, 2003, 16 (06) :451-457

[5] Generation of large libraries of random mutants in Bacillus subtilis by PCR-based plasmid multimerization [J].

Shafikhani, S ;

Siegel, RA ;

Ferrari, E ;

Schellenberger, V .

BIOTECHNIQUES, 1997, 23 (02) :304-310

[6]

Steipe B, 1999, CURR TOP MICROBIOL, V243, P55

[7]

Sun F, 1995, J Comput Biol, V2, P63, DOI 10.1089/cmb.1995.2.63

[8] Estimation of the mutation rate during error-prone polymerase chain reaction [J].

Wang, D ;

Zhao, C ;

Cheng, R ;

Sun, FZ .

JOURNAL OF COMPUTATIONAL BIOLOGY, 2000, 7 (1-2) :143-158

[9] DERIVATION OF A MATHEMATICAL EXPRESSION USEFUL FOR THE CONSTRUCTION OF COMPLETE GENOMIC LIBRARIES [J].

ZILSEL, J ;

MA, PH ;

BEATTY, JT .

GENE, 1992, 120 (01) :89-92

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