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Computational Biology
A Hypertextbook
Scott T. Kelley (Author), Dennis Didulo (Author)
9781683670025, Wiley
Paperback / softback, published 1 January 2018
210 pages
25.2 x 17.8 x 1 cm, 0.522 kg
This textbook is for anyone who needs to learn the basics of bioinformatics—the use of computational methods to better understand biological systems. Computational Biology covers the principles and applications of the computational methods used to study DNA, RNA, and proteins, including using biological databases such as NCBI and UniProt; performing BLAST, sequence alignments, and structural predictions; and creating phylogenetic trees. It includes a primer that can be used as a jumping off point for learning computer programming for bioinformatics.
This text can be used as a self-study guide, as a course focused on computational methods in biology/bioinformatics, or to supplement general courses that touch on topics included within the book. Computational Biology's robust interactive online components “gamify” the study of bioinformatics, allowing the reader to practice randomly generated problems on their own time to build confidence and skill and gain practical real-world experience. The online component also assures that the content being taught is up to date and accurately reflects the ever-changing landscape of bioinformatics web-based programs.
Preface ix For the Instructor xi For the Student xiii Acknowledgments xiv About the Authors xv Chapter –1 Getting Started 1 Chapter 00 Introduction 5 Activity 0.1: Biological Databases and Data Storage 20 Chapter 01 BLAST 31 Activity 1.1: BLAST Algorithm 36 Chapter 02 Protein Analysis 47 Activity 2.1: Hydrophobicity Plotting 52 Activity 2.2: Protein Secondary Structure Prediction 58 Chapter 03 Sequence Alignment 67 Activity 3.1: Dynamic Programming 74 Chapter 04 Patterns in the Data 91 Activity 4.1: Protein Sequence Motifs 94 Activity 4.2: Position-Specific Weight Matrices 102 Chapter 05 RNA Structure Prediction 111 Activity 5.1: RNA Structure Prediction 118 Chapter 06 Phylogenetics 133 Activity 6.1: Phylogenetic Analysis 140 Chapter 07 Probability: All Mutations are not Equal (-ly Probable) 157 Activity 7.1: Generating PAM and BLOSUM Substitution Matrices 163 Chapter 08 Bioinformatics Programming: A Primer 179 Index 191
Subject Areas: Biology, life sciences [PS]
