DNA, Words and Models

Statistics of Exceptional Words

Stéphane Robin, François Rodolphe, Sophie Schbath

138 pages, parution le 12/10/2005

Ajouter à une liste

Indisponible

Résumé

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.

Practical guide for biologists and bioinformaticians

Statistical analysis of DNA sequences

Illustrated with numerous examples provided from the analysis of several bacterial genomes

L'auteur - Stéphane Robin

est professeur à l'Institut national agronomique Paris-Grignon (INA-PG) et mène ses recherches au laboratoire Organisation et modélisation de l'information et des processus (OMIP).

L'auteur - François Rodolphe

est directeur de recherche à l'Institut national de la recherche agronomique (INRA) et dirige le laboratoire Mathématiques, informatique et génome (MIG), à Jouy-en-Josas.

L'auteur - Sophie Schbath

est chargée de recherche à l'Institut national de la recherche agronomique (INRA) et travaille au laboratoire Mathématiques, informatique et génome (MIG), à Jouy-en-Josas.

Sommaire

List of figures
List of tables
Preface
Preliminary notions and notations
Introduction
Simple models for biological sequences
Introduction to Markov chain models
Taking heterogeneities into account
Statistical properties of word occurrences
Words with unexpected frequencies
Words with unexpected locations
The last word
References
Index

Voir tout

Replier

Caractéristiques techniques

	PAPIER
Éditeur(s)	Cambridge University Press
Auteur(s)	Stéphane Robin, François Rodolphe, Sophie Schbath
Parution	12/10/2005
Nb. de pages	138
Format	15,5 x 23,5
Couverture	Relié
Poids	390g
Intérieur	Noir et Blanc
EAN13	9780521847292
ISBN13	978-0-521-84729-2