Essential Bioinformatics生物信息学基础
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作者： Jin Xiong著
出 版 社：
出版时间： 2006-3-1字数：版次： 1页数： 338印刷时间： 2006/03/01开本： 16开印次： 1纸张： 胶版纸I S B N ： 9780521600828包装： 平装内容简介
Essential Bioinformatics is a concise yet comprehensive textbook of bioinformatics, which provides a broad introduction to the entire field. Written specifically for a life science audience, the basics of bioinformatics are explained, followed by discussions of the state-of-the-art computational tools available to solve biological research problems. All key areas of bioinformatics are covered including biological databases, sequence alignment, genes and promoter prediction, molecular phylogenetics, structural bioinformatics, genomics and proteomics. The book emphasizes how computational methods work and compares the strengths and weaknesses of different methods. This balanced yet easily accessible text will be invaluable to students who do not have sophisticated computational backgrounds. Technical details of computational algorithms are explained with a minimum use of mathematical formulae; graphical illustrations are used in their place to aid understanding. The effective synthesis of existing literature as well as in-depth and up-to-date coverage of all key topics in bioinformatics make this an ideal textbook for all bioinformatics courses taken by life science students and for researchers wishing to develop their knowledge of bioinformatics to facilitate their own research.
This clear and concise introduction to bioinformatics will appeal to undergraduate and graduate students in the life sciences, as well as researchers wishing to develop their knowledge of bioinformatics tools. All key areas are covered including biological databases, sequence alignment, genes and promoter prediction, molecular phylogenetics, structural bioinformatics, genomics and proteomics.
作者简介
Jin Xiong is Assistant Professor of Biology at Texas A & M University, where he has taught bioinformatics to graduate and undergraduate students for several years.
目录
Preface
SECTION Ⅰ INTRODUCTION AND BIOLOGICAL DATABASES
1 Introduction
What Is Bioinformatics?
Goal
Scope
Applications
Limitations
New Themes
Further Reading
2 Introduction to Biological Databases
What Is a Database?
Types of Databases
Biological Databases
Pitfalls of Biological Databases
Information Retrieval from Biological Databases
Summary
Further Reading
SECTION Ⅱ SEQUENCE ALIGNMENT
3 Pairwise Sequence Alignment
Evolutionary Basis
Sequence Homology versus Sequence Similarity
Sequence Similarity versus Sequence Identity
Methods
Scoring Matrices
Statistical Significance of Sequence Alignment
Summary
Further Reading
4 Database Similarity Searching
Unique Requirements of Database Searching
Heuristic Database Searching
Basic Local Alignment Search Tool (BLAST)
FASTA
Comparison of FASTA and BLAST
Database Searching with the Smith-Waterman Method
Summary
Further Reading
5 Multiple Sequence Alignment
Scoring Function
Exhaustive Algorithms
Heuristic Algorithms
Practical Issues
Summary
Further Reading
6 Profiles and Hidden Markov Models
Position-Specific Scoring Matrices !
Profiles
Markov Model and Hidden Markov Model
Summary
Further Reading
7 Protein Motifs and Domain Prediction
Identification of Motifs and Domains in Multiple Sequence
Alignment
Motif and Domain Databases Using Regular Expressions
Motif and Domain Databases Using Statistical Models
Protein Family Databases
Motif Discovery in Unaligned Sequences
Sequence Logos
Summary
Further Reading
SECTION Ⅲ GENEAND PROMOTER PREDICTION
8 Gene Prediction
Categories of Gene Prediction Programs
Gene Prediction in Prokaryotes
Gene Prediction in Eukaryotes
Summary
Further Reading
Promoter and Regulatory Element Prediction
Promoter and Regulatory Elements in Prokaryotes
Promoter and Regulatory Elements in Eukaryotes
Prediction Algorithms
Summary
Further Reading
SECTION Ⅳ MOLECULAR PHYLOGENETICS
10 Phylogenetics Basics
Molecular Evolution and Molecular Phylogenetics
Terminology
Gene Phylogeny versus Species Phylogeny
……
SECTION Ⅴ STRUCTURAL BIOINFORMATICS
SECTION Ⅵ GENOMICS AND PROTEOMICS
APPENDIX
INDEX
