Multiple Biological Sequence Alignment

by Nguyen, Ken

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Title Statements

Full title :Multiple Biological Sequence Alignment.

Edition Statements

Publication Date:2016.
Edition:1

Publication Statements

Publisher(s):Wiley
Language:eng
Publication Date:2016.

The Physical Object

Description:1 online resource (244)

Edition Identifiers

ISBN:1119272459, 9781119272458
oclc:ocn959608957
LC Classification:QH441
Dewey Decimal:572.8

Cover -- Title Page -- Copyright -- Contents -- Preface -- Chapter 1 Introduction -- 1.1 Motivation -- 1.2 The Organization of this Book -- 1.3 Sequence Fundamentals -- 1.3.1 Protein -- 1.3.2 DNA/RNA -- 1.3.3 Sequence Formats -- 1.3.4 Motifs -- 1.3.5 Sequence Databases -- Chapter 2 Protein/DNA/RNA Pairwise Sequence Alignment -- 2.1 Sequence Alignment Fundamentals -- 2.2 Dot-Plot Matrix -- 2.3 Dynamic Programming -- 2.3.1 Needleman-Wunsch's Algorithm -- 2.3.2 Example -- 2.3.3 Smith-Waterman's Algorithm -- 2.3.4 Affine Gap Penalty -- 2.4 Word Method -- 2.4.1 Example

2.5 Searching Sequence Databases -- 2.5.1 FASTA -- 2.5.2 BLAST -- Chapter 3 Quantifying Sequence Alignments -- 3.1 Evolution and Measuring Evolution -- 3.1.1 Jukes and Cantor's Model -- 3.1.2 Measuring Relatedness -- 3.2 Substitution Matrices and Scoring Matrices -- 3.2.1 Identity Scores -- 3.2.2 Substitution/Mutation Scores -- 3.3 GAPS -- 3.3.1 Sequence Distances -- 3.3.2 Example -- 3.4 Scoring Multiple Sequence Alignments -- 3.4.1 Sum-of-Pair Score -- 3.5 Circular Sum Score -- 3.6 Conservation Score Schemes -- 3.6.1 Wu and Kabat's Method -- 3.6.2 Jores's Method

3.6.3 Lockless and Ranganathan's Method -- 3.7 Diversity…