This volume covers practical important topics in the analysis of protein sequences and structures. It includes comparing amino acid sequences to structures comparing structures to each other, searching information on entire protein families as well as searching with single sequences, how to use the Internet and how to set up and use the SRS molecular biology database management system. Finally, there are chapters on multiple sequence alignment and protein secondary structure prediction. This book will be invaluable to occasional users of these techniques as well as experienced professionals or researchers.
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Book Description
Editorial Reviews
Review
"a worthwhile addition to your library"R Briefings in Bioformatics
About the Author
Des Higgins is at University College, Cork. Willie Taylor is at National Institute for Medical Research, London.
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Most Helpful Customer Reviews
13 of 14 people found the following review helpful:
4.0 out of 5 stars
Great book for protein lovers!,
By A Customer
This review is from: Bioinformatics: Sequence, Structure and Databanks: A Practical Approach (Paperback)
The title of this collection of texts is slightly misleading because the book is entirely devoted to proteins. It does not cover either DNA sequence analysis or nucleic acid structure prediction. Nor does it expose methods of "genome informatics" such as computer-assisted genome annotation or function-associated genome segmenting. Moreover the problematics of molecular evolution is covered only as much as protein phylogeny and homology is discussed. There is virtually no mention of methods for studying genome evolution.Despite the above negatives the book provides a remarkable survey and tutorial of protein sequence and structure analysis. The editors introduction (Higgins and Taylor) is brief, precise and to the point. Chapter 1 (Jones and Hadley) and Chapter 2 (Johnson and Lehtonen) constitute a tutorial of protein structure analysis. Both chapters are likely to be informative for the beginners and enjoyable by the experts. Chapter 6 (Heringa) and Chapter 8 (Yona and Brenner) are real masterpieces and should be read by all practitioners of bioinformatics as well as by all individuals who want to learn methods of sequence analysis. These two chapters and the editor's introduction make the entire book a valuable desk reference for practitioners and a candidate textbook for students. Just to be completely fair I need to say that Chapter 5 (Henikoff and Henikoff) is potentially confusing and poorly written. The same - although to a lesser degree - applies to Chapter 9 (Harper.) In summary: Higgins and Taylor have assembled a superb collection of short texts in protein sequence and structure analysis. Practitioners of both bioinformatics and protein biochemistry should use this book as a desk reference. Those who want to learn about bioinformatics will certainly benefit from reading selected chapters of this book as well. The book would not be harmed if it failed to contain confusing and poorly written Chapter 5 (Henikoff and Henikoff) and Chapter 9 (Harper.)
12 of 15 people found the following review helpful:
5.0 out of 5 stars
A great blend of biology and computer science,
By
This review is from: Bioinformatics: Sequence, Structure and Databanks: A Practical Approach (Paperback)
Gives a great overview of bioinformatic techniques in "sequence analysis and searching" and "protein structure analysis and prediction." Then it gives an overview of gene databases online as do all other bioinformatics books. The best part about it is that it spends 70% talking about new biology techniques which greatly helps a computer scientist like me to get into the field. Recommended.
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Inside This Book
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First Sentence:
As the attempts to sequence entire genomes increases the number of protein sequences by a factor of two each year, the gap between sequence and structural information stored in public databases is growing rapidly. Read the first page Key Phrases - Statistically Improbable Phrases (SIPs): (learn more)
jackknife testing, regular expression type patterns, equivalent atom pairs, number maximal number, matched atoms, multiple alignment methods, secondary structure prediction methods, threading methods, double dynamic programming, fold recognition method, index browser, secondary structure information, sequence databanks, seed residues, alignment cost, bits score, query sequence, gapped alignments, family databases, multiple alignments, substitution matrices, fasta format, scoring matrices, scoring matrix, equivalent atoms Key Phrases - Capitalized Phrases (CAPs): (learn more)
Nucleic Acids Res, Protein Sci, Academic Press, Protein Eng, World Wide Web, Monte Carlo, Acta Crystallogr, Bioinformatics Institute, Query Manager, Top Page, List Views, New York, Table Views, Trends Biochem, Cambridge University Press, Georgia Tech Research Corporation, Nature Genet, User Survey, Wellcome Trust Genome Campus New!
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Front Cover | Table of Contents | First Pages | Index | Back Cover | Surprise Me!
As the attempts to sequence entire genomes increases the number of protein sequences by a factor of two each year, the gap between sequence and structural information stored in public databases is growing rapidly. Read the first page Key Phrases - Statistically Improbable Phrases (SIPs): (learn more)
jackknife testing, regular expression type patterns, equivalent atom pairs, number maximal number, matched atoms, multiple alignment methods, secondary structure prediction methods, threading methods, double dynamic programming, fold recognition method, index browser, secondary structure information, sequence databanks, seed residues, alignment cost, bits score, query sequence, gapped alignments, family databases, multiple alignments, substitution matrices, fasta format, scoring matrices, scoring matrix, equivalent atoms Key Phrases - Capitalized Phrases (CAPs): (learn more)
Nucleic Acids Res, Protein Sci, Academic Press, Protein Eng, World Wide Web, Monte Carlo, Acta Crystallogr, Bioinformatics Institute, Query Manager, Top Page, List Views, New York, Table Views, Trends Biochem, Cambridge University Press, Georgia Tech Research Corporation, Nature Genet, User Survey, Wellcome Trust Genome Campus New!
Books on Related Topics | Concordance | Text Stats Browse Sample Pages:
Front Cover | Table of Contents | First Pages | Index | Back Cover | Surprise Me!
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