Understanding Bioinformatics

Front Cover
Garland Science, 2008 - Medical - 772 pages
2 Reviews

Suitable for advanced undergraduates and postgraduates, Understanding Bioinformatics provides a definitive guide to this vibrant and evolving discipline. The book takes a conceptual approach. It guides the reader from first principles through to an understanding of the computational techniques and the key algorithms. Understanding Bioinformatics is an invaluable companion for students from their first encounter with the subject through to more advanced studies. 

The book is divided into seven parts, with the opening part introducing the basics of nucleic acids, proteins and databases. Subsequent parts are divided into 'Applications' and 'Theory' Chapters, allowing readers to focus their attention effectively.  In each section, the Applications Chapter provides a fast and straightforward route to understanding the main concepts and 'getting started'. Each of these is then followed by Theory Chapters which give greater detail and present the underlying mathematics. In Part 2, Sequence Alignments, the Applications Chapter shows the reader how to get started on producing and analyzing sequence alignments, and using sequences for database searching, while the next two chapters look closely at the more advanced techniques and the mathematical algorithms involved. Part 3 covers evolutionary processes and shows how bioinformatics can be used to help build phylogenetic trees. Part 4 looks at the characteristics of whole genomes. In Parts 5 and 6 the focus turns to secondary and tertiary structure - predicting structural conformation and analysing structure-function relationships. The last part surveys methods of analyzing data from a set of genes or proteins of an organism and is rounded off with an overview of systems biology.

The writing style of Understanding Bioinformatics is notable for its clarity, while the extensive, full-color artwork has been designed to present the key concepts with simplicity and consistency. Each chapter uses mind-maps and flow diagrams to give an overview of the conceptual links within each topic. 

 

What people are saying - Write a review

User Review - Flag as inappropriate

The best bioinformatics text book i have ever read

Contents

Background Basics
1
base pairing to form a double helix
7
3
9
Translation involves transfer RNAs
13
The control of translation
19
Protein Structure
26
and strands
36
Summary
43
Further Reading
515
Tertiary Structures
521
Analyzing StructureFunction Relationships Applications Chapter
567
assumptions Chapter 14 Analyzing StructureFunction
568
150
577
SwissPdb Viewer can be used for manual binding sites
586
Summary
593
Cells and Organisms
597

Sequence Alignments
69
35
77
5
83
36
100
Pairwise Sequence Alignment and Database Searching Theory Chapter
115
Dynamic Programming Algorithms
127
Local and suboptimal alignments can be produced
135
Indexing Techniques and Algorithmic
141
THEORY CHAPTER
165
program
176
38
203
41
215
Evolutionary Processes
221
Evolutionary Processes
223
225
255
Building Phylogenetic Trees Theory Chapter
267
2
268
42
284
43
296
50
302
Summary
311
Genome Characteristics
317
1
318
307
338
Gene Detection and Genome Annotation Theory Chapter
357
270
388
combined with base statistics
393
Summary
405
Secondary Structures
409
Knowledgebased prediction
412
381
414
Predicting Secondary Structures Theory Chapter
461
including information from homologous sequences
484
90
489
444
491
also be successfully predicted with HMMs
509
590
618
91
619
Further Reading
624
Clustering Methods and Statistics
626
alternative partitions of the data
639
96
645
independent methods
650
Summary
662
97
664
Systems Biology
668
constructing a model
674
100
676
another by means of bistable switches
688
APPENDICES Background Theory
695
Force Fields for Calculating Intra and Intermolecular
701
Further Reading
708
Function Optimization
709
Thermodynamic Simulation and Global Optimization
715
List of Symbols
721
Glossary
734
156
752
271
753
416
754
620
756
102
757
342
758
494
759
696
760
421
761
159
762
377
764
435
767
644
768
288
770
Copyright

Other editions - View all

Common terms and phrases

About the author (2008)

Marketa Zvelebil is the team leader of cancer informatics at The Breakthrough Toby Robins Breast Cancer Research Centre.

Jeremy O. Baum is an Honorary Teaching Fellow in the School of Crystallography, Birkbeck College.

Bibliographic information