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Concepts and Techniques in Genomics and Proteomics - 1st Edition - ISBN: 9781907568107, 9781908818058

Concepts and Techniques in Genomics and Proteomics

1st Edition

Authors: N Saraswathy P Ramalingam
eBook ISBN: 9781908818058
Paperback ISBN: 9780081017302
Hardcover ISBN: 9781907568107
Imprint: Woodhead Publishing
Published Date: 1st July 2011
Page Count: 268
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Table of Contents

List of figures

List of tables



List of abbreviations

About the authors

Chapter 1: Introduction to genes and genomes


1.1 Introduction

1.2 The cell

1.3 Mendel’s contributions

1.4 The chromosomal theory of inheritance

1.5 The chemical nature of genetic material

1.6 Composition and structure of DNA

1.7 The central dogma of life

1.8 Genomes of prokaryotes and eukaryotes

1.9 The molecular structure of the gene

1.10 Conclusion

Review questions and answers

Web addresses

Chapter 2: The human genome project


2.1 The history of the HGP

2.2 The budget for the HGP

2.3 Goals of the HGP

2.4 Laboratories and investigators involved in the HGP

2.5 The Human Genome Organization (HUGO)

2.6 Salient findings of the HGP

2.7 Potential applications of the HGP

2.8 Post-HGP challenges

2.9 Ethical, legal, social issues (ELSI) related to the HGP

2.10 The international HapMap Project

Review questions and answers

Web addresses

Chapter 3: Genomes of model organisms


3.1 Introduction

3.2 The viral genome

3.3 Bacterial genomes

3.4 Fungal genomes

3.5 Worm genome: Caenorhabditis elegans

3.6 Fruit fly: Drosophila melanogaster

3.7 Plant genome

3.8 Animal genome

3.9 The Microbial Genome Project

Chapter 4: High capacity vectors


4.1 Introduction

4.2 Cosmid vectors

4.3 Fosmid vectors

4.4 Bacteriophage P1 derived vector

4.5 P1 derived artificial chromosome (PAC)

4.6 Bacterial artificial chromosomes (BAC)

4.7 Yeast artificial chromosome (YAC)

Review questions and answers

Web address

Chapter 5: DNA sequencing methods


Key concepts

5.1 The history of DNA sequencing

5.2 Steps in DNA sequencing

5.3 Chemical degradation method of DNA sequencing

5.4 The chain termination method of DNA sequencing

5.5 Advances in DNA sequencing methods

5.6 New sequencing methods

5.7 Next generation sequencing methods

Web addresses

Chapter 6: Genome mapping


Key concepts

6.1 Introduction

6.2 Importance of genome mapping in the context of genome sequencing

6.3 Genetic mapping

6.4 Genetic mapping in humans

6.5 Physical mapping methods

Chapter 7: Genome sequencing methods


7.1 Introduction

7.2 The clone-by-clone genome sequencing method

7.3 The whole genome shotgun sequencing method

7.4 Error control in genome sequencing

Chapter 8: Genome sequence assembly and annotation


8.1 Introduction

8.2 Clone contig assembly

8.3 Genome assembly program

8.4 Gaps and gap closing methods

8.5 Draft and finished genome sequences

8.6 Genome annotation

8.7 Comparative genomics

Chapter 9: Functional genomics


Key concepts

9.1 Introduction

9.2 Northern blotting

9.3 Subtractive hybridization

9.4 Differential Display Reverse Transcription PCR (DDRT-PCR)

9.5 Representational Difference Analysis (RDA)

9.6 Serial Analysis Gene Expression (SAGE)

9.7 Microarray technology

Web addresses

Chapter 10: Introduction to proteomics


Key concepts

10.1 Introduction

10.2 Traditional route of protein study

10.3 Protein isolation methods

10.4 Branches of proteomics

10.5 Characteristics of proteomics

Chapter 11: Two-dimensional gel electrophoresis of proteins


11.1 Introduction

11.2 Principles of 2D-PAGE

11.3 2D-PAGE apparatus

11.4 Sample preparation

11.5 First-dimensional separation by isoelectric focusing

11.6 Equilibration

11.7 Second-dimensional separation by SDS-PAGE

11.8 Detection of proteins on 2D-PAGE gels

11.9 Image analysis

11.10 Application of 2D-PAGE in proteomics

Chapter 12: Mass spectrometry for proteomics


12.1 Introduction

12.2 History of the mass spectrometer

12.3 Mass spectrometer

12.4 Protein sample preparation for MS analysis

12.5 Applications of MS proteomics

Chapter 13: Protein Identification by Peptide Mass Fingerprinting (PMF)


Key concepts

13.1 Introduction

13.2 Principles of peptide mass fingerprinting

13.3 Protein preparation for PMF

13.4 Mass spectrometric analysis of peptide fragments

13.4 Data analysis and identification of protein

Web address

Chapter 14: Protein sequencing techniques


14.1 Introduction

14.2 Preparation of protein sample for sequencing

14.3 Steps in protein sequencing

14.4 Protein sequencing by Edman degradation

14.5 De novo protein sequencing by mass spectrometry

Review questions and answers

Chapter 15: Phosphoproteomics


15.1 Post-translational modifications of proteins

15.2 Phosphoproteomics

15.3 Phosphoprotein enrichment methods

15.4 Mass spectrometry for phosphoprotein identification

Review questions and answers

Chapter 16: Glycoproteomics


16.1 Glycoproteins

16.2 Glycoprotein enrichment methods

16.3 Mass spectrometric analysis of glycoproteins

16.4 Importance of glycoproteins in human diseases

Review questions and answers





Concepts and techniques in genomics and proteomics covers the important concepts of high-throughput modern techniques used in the genomics and proteomics field. Each technique is explained with its underlying concepts, and simple line diagrams and flow charts are included to aid understanding and memory. A summary of key points precedes each chapter within the book, followed by detailed description in the subsections. Each subsection concludes with suggested relevant original references.

Key Features

  • Provides definitions for key concepts
  • Case studies are included to illustrate ideas
  • Important points to remember are noted


Undergraduate and post graduate students within biotechnology; Academics and researchers in other fields, such as life sciences, microbiology, biochemistry, medicine and bioinformatics


No. of pages:
© Woodhead Publishing 2011
1st July 2011
Woodhead Publishing
eBook ISBN:
Paperback ISBN:
Hardcover ISBN:

Ratings and Reviews

About the Authors

N Saraswathy

Dr Nachimuthu Saraswathy is currently Associate Professor at the Department of Biotechnology, Kumaraguru College of Technology. She teaches courses on Molecular Biology, Genetic Engineering, and Plant Biotechnology, as well as Genomics and Proteomics. Dr Saraswathy gained her Ph.D. in Molecular Biology from the National Centre for Plant Biotechnology, New Delhi. She has published several articles in journals of biotechnology and biochemistry.

P Ramalingam

Mr Ponnusamy Ramalingam is Associate Professor at the Department of Biotechnology, Kumaraguru College of Technology. He received his M.Sc. In Biochemistry from Gulbarga University and Mtech in Biotechnology from Anna University. He has also taught and researched in institutions such as Kongu Engineering College and PNC&KR College, and has contributed several published journal articles.

Affiliations and Expertise

Kumaraguru College of Technology, India