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DNA, words and models. Statistics of exceptional words. Translated from the 2003 French original. (English) Zbl 1185.92047

Cambridge: Cambridge University Press (ISBN 0-521-84729-X/hbk). xx, 138 p. (2005).
Publisher’s description: An important problem in computational biology is identifying short DNA sequences (mathematically, ’words’) associated to a biological function. One approach consists in determining whether a particular word is simply random or is of statistical significance, for example, because of its frequency or location. This book introduces the mathematical and statistical ideas used in solving this so-called exceptional word problem. It begins with a detailed description of the principal models used in sequence analysis: Markovian models are central here and capture compositional information on the sequence being analysed. There follows an introduction to several statistical methods that are used for finding exceptional words with respect to the model used. The second half of the book is illustrated with numerous examples provided from the analysis of bacterial genomes, making this a practical guide for users facing a real situation and needing to make an adequate procedure choice.

MSC:

92C40 Biochemistry, molecular biology
62P10 Applications of statistics to biology and medical sciences; meta analysis
60J20 Applications of Markov chains and discrete-time Markov processes on general state spaces (social mobility, learning theory, industrial processes, etc.)
92C42 Systems biology, networks
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