This monograph addresses, in a systematic and pedagogical manner, the mathematical methods and the algorithms required to deal with the molecularly based problems of bioinformatics. The book will be useful to students, research scientists and practitioners of bioinformatics and related fields, especially those who are interested in the underlying mathematical methods and theory. Among the methods presented in the book, prominent attention is given to pair-wise and multiple sequence alignment algorithms, stochastic models of mutations, modulus structure theory and protein configuration analysis. Strong links to the molecular structures of proteins, DNA and other biomolecules and their analyses are developed. In particular, for proteins an in-depth exposition of secondary structure prediction methods should be a valuable tool in both molecular biology and in applications to rational drug design. The book can also be used as a textbook and for this reason most of the chapters include exercises and problems at the level of a graduate program in bioinformatics.
Author(s): Shiyi Shen, Jack A. Tuszynski (auth.)
Series: Biological and Medical Physics, Biomedical Engineering
Edition: 1
Publisher: Springer-Verlag Berlin Heidelberg
Year: 2008
Language: English
Pages: 445
Tags: Bioinformatics;Proteomics;Genetics and Population Dynamics;Human Genetics;Biophysics/Biomedical Physics
Front Matter....Pages I-XVI
Outline....Pages 1-1
Front Matter....Pages 3-3
Introduction....Pages 5-28
Stochastic Models of Mutations and Structural Analysis....Pages 29-65
Modulus Structure Theory....Pages 67-108
Super Pairwise Alignment....Pages 109-147
Multiple Sequence Alignment....Pages 149-181
Network Structures of Multiple Sequences Induced by Mutation....Pages 183-217
Alignment Space....Pages 219-251
Front Matter....Pages 253-253
Background Information Concerning the Properties of Proteins....Pages 255-263
Informational and Statistical Iterative Analysis of Protein Secondary Structure Prediction....Pages 265-278
Three-Dimensional Structure Analysis of the Protein Backbone and Side Chains....Pages 279-298
Alignment of Primary and Three-Dimensional Structures of Proteins....Pages 299-324
Depth Analysis of Protein Spatial Structure....Pages 325-354
Analysis of the Morphological Features of Protein Spatial Structure....Pages 355-394
Semantic Analysis for Protein Primary Structure....Pages 395-430
Back Matter....Pages 431-445
