Sequence Analysis in Molecular Biology: Treasure Trove or Trivial Pursuit presents the methods for sequence analysis of DNA and proteins. This book contains eight chapters that consider the sequence analysis either directly on a microcomputer or using one of the main sequence/programs data banks.
This book starts with a description of the main nucleic acid and protein sequence data banks, followed by a short section on the ""housekeeping aids"" that the computer can provide during a sequencing project. Chapters 4 and 5 deal with nucleic acid and protein sequence analysis. Chapter 6 treats algorithms for homology searching and sequence alignments. Chapter 7 presents some selected examples of how computer modeling can help decide whether an observed sequence pattern is significant or not, and how computer simulation is sometimes used to get a feeling for the behavior of intrinsically complex sequence-dependent processes. Chapter 8 contains some comments on the role of theoretical sequence analysis in molecular biology. This book is directed toward molecular biologists.
Preface Chapter 1 Introduction: The Abnormalin Story Chapter 2 The Collector's Dream: From Dayhoff to Data Banks Chapter 3 Sequencing on the Computer: Programs That Make Lab Work Easier, Faster, and More Fun(?) I. Designing Oligonucleotide Probes II. Constructing Restriction Maps III. Sequencing DNA IV. Finding Restriction Sites V. Translating DNA into Protein VI. Simulating Cloning Experiments Chapter 4 Nucleotide Sequences: What You Can Do With Your Sequence Once You Have It I. Protein - DNA Interactions and Regulation of Gene Expression II. Promoter Sequences III. Terminator Sequences IV. Splice Sites V. Initiation of Protein Synthesis: Ribosome-Binding Sites VI. Finding Coding Regions VII. RNA Folding and Structure VIII. DNA Geometry Chapter 5 Protein Sequences: What You Can Do With Your Sequence Once You Have It I. Rules of Protein Structure II. Secondary Structure Prediction III. Supersecondary Structure Prediction IV. Predicting the Structural and Functional Class of a Protein V. The Polar-Apolar Nature of Soluble and Membrane-Bound Proteins VI. Sorting Signals in Proteins 1 VII. Covalent Modifications of Proteins Chapter 6 Sequence Similarities, Homologies, and Alignments I. Dot-Matrix Analysis II. Global Alignments III. Local Alignments IV. Multiple Alignments V. Measures of Amino Acid Similarity VI. Estimating the Statistical Significance of an Alignment Chapter 7 Machine Molecular Biology: Running Experiments on the Computer I. Patterns That Were Not II. Computer-Guided Intuition Chapter 8 Sequences: Where Theoretical and Experimental Molecular Biology Meet Appendix 1 Molecular Biology Databases Appendix 2 Some Commercially Available Software Packages for Molecular Biology Bibliography Index
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- © Academic Press 1987
- 10th November 1987
- Academic Press
- eBook ISBN: