Genomics Protocols

1. Front Matter

   Pages i-xiv

   PDF

2. Construction of Microsatellite-Based, High-Resolution Genetic Maps in the Mouse

   • Paul A. Lyons

   Pages 1-9

3. Genetic Analysis of Complex Traits

   • Stephen P. Bryant, Mathias N. Chiano

   Pages 11-27

4. Sequence-Based Detection of Single Nucleotide Polymorphisms

   • Deborah A. Nickerson, Natali Kolker, Scott L. Taylor, Mark J. Rieder

   Pages 29-35

5. Genomic Mismatch Scanning for the Mapping of Genetic Traits

   • Farideh Mirzayans, Michael A. Walter

   Pages 37-46

6. Detection of Chromosomal Abnormalities by Comparative Genomic Hybridization

   • Mario A. J. A. Hermsen, Marjan M. Weiss, Gerrit A. Meijer, Jan P. A. Baak

   Pages 47-55

7. Construction of a Bacterial Artificial Chromosome Library

   • Sangdun Choi, Ung-Jin Kim

   Pages 57-68

8. Contiguation of Bacterial Clones

   • Sean J. Humphray, Susan J. Knaggs, Ioannis Ragoussis

   Pages 69-108

9. Mapping of Genomic Clones by Fluorescence In Situ Hybridization

   • Margaret A. Leversha

   Pages 109-127

10. Map Integration

    • Panagiotis Deloukas

    Pages 129-142

11. Construction of Full-Length-Enriched cDNA Libraries

    • Yutaka Suzuki, Sumio Sugano

    Pages 143-153

12. Construction of Transcript Maps by Somatic Cell/Radiation Hybrid Mapping

    • Panagiotis Deloukas

    Pages 155-168

13. Preparation and Screening of High-Density cDNA Arrays with Genomic Clones

    • Günther Zehetner, Maria Pack, Katja Schäfer

    Pages 169-188

14. Direct Selection of cDNAs by Genomic Clones

    • Daniela Toniolo

    Pages 189-199

15. Exon Trapping

    • Martin C. Wapenaar, Johan T. Den Dunnen

    Pages 201-215

16. Sequencing Bacterial Artificial Chromosomes

    • David E. Harris, Lee Murphy

    Pages 217-234

17. Finding Genes in Genomic Nucleotide Sequences by Using Bioinformatics

    • Yvonne J. K. Edwards, Simon M. Brocklehurst

    Pages 235-247

18. Gene Identification Using the Pufferfish, Fugu rubripes, by Sequence Scanning

    • Greg Elgar

    Pages 249-262

19. Isolation of Differentially Expressed Genes Through Subtractive Suppression Hybridization

    • Oliver Dorian von Stein

    Pages 263-278

20. Isolation of Differentially Expressed Genes by Representational Difference Analysis

    • Christine Wallrapp, Thomas M. Gress

    Pages 279-294

We must unashamedly admit that a large part of the motivation for editing Genomics Protocols was selfish. The possibility of assembling in a single volume a unique and comprehensive collection of complete protocols, relevant to our work and the work of our colleagues, was too good an opportunity to miss. We are pleased to report, however, that the outcome is something of use not only to those who are experienced practitioners in the genomics field, but is also valuable to the larger community of researchers who have recognized the potential of genomics research and may themselves be beginning to explore the technologies involved. Some of the techniques described in Genomics Protocols are clearly not restricted to the genomics field; indeed, a prerequisite for many procedures in this discipline is that they require an extremely high throughput, beyond the scope of the average investigator. However, what we have endeavored here to achieve is both to compile a collection of procedures concerned with geno- scale investigations and to incorporate the key components of “bottom-up” and “top-down” approaches to gene finding. The technologies described extend from those traditionally recognized as coming under the genomics umbrella, touch on proteomics (the study of the expressed protein complement of the genome), through to early therapeutic approaches utilizing the potential of genome programs via gene therapy (Chapters 27–30).

"The two editors of this volume have invited contributors from a variety of authors to write a laboratory manual dealing exclusively with the application of genomic methods in eukaryotes....Each chapter is presented in a standardized fashion, beginning with an introduction followed by a list of all the materials needed (including the machines and software) a detailed experimental protocol, notes (troubleshooting), and a list of references....it will be of value for those requiring step-by-step "cookbook" procedures for some of the methodologies described, and this definitive and authorative volume belongs in the library of every quality research institution where genomics is performed." - CHEMBIOCHEM

"...a solid introduction to the basic techniques involved in the process of disease gene identification...should prove to be useful to those scientists who wish to expand their skills in the field." -Biotech Software & Internet Report

• UK Human Genome Mapping Project Resource Centre, Cambridge, UK

  Michael P. Starkey, Ramnath Elaswarapu