PCR Applications (eBook)

Front Cover 1
PCR Applications: Protocols for Functional Genomics 4
Copyright Page 5
CONTENTS 6
Contributors 12
Preface 18
Part One: KEY CONCEPTS FOR PCR 20
Chapter 1. Optimization of PCR: Conversations between Michael and David 22
Chapter 2. The Convergence of PCR, Computers, and the Human Genome Project: Past, Present, and Future 42
Chapter 3. Thermostable DNA Polymerases: An Update 52
Chapter 4. Musings on Microbial Genomes 68
Chapter 5. Statistical Refinement of Primer Design Parameters 74
Chapter 6. Multiplex PCR: Optimization Guidelines 92
Chapter 7. The Use of Immobilized Mismatch Binding Protein for the Optimization of PCR Fidelity 114
Chapter 8. A New Generation of PCR Instruments and Nucleic Acid Concentration Systems 124
Chapter 9. Sequencing PCR Products 146
Chapter 10. Recent Advances in High-Temperature Reverse Transcription and PCR 160
Chapter 11. Viral Genotyping by a Quantitative Point Mutation Assay: Application to HIV-1 Drug Resistance 172
Chapter 12. In Situ PCR 188
Part Two: QUANTITATIVE PCR 214
Chapter 13. Standards for PCR Assays 216
Chapter 14. Rapid Thermal Cycling and PCR Kinetics 230
Chapter 15. Kinetics of Competitive Reverse Transcriptase-PCR 250
Chapter 16. Kinetic PCR Analysis Using a CCD Camera and without Using Oligonucleotide Probes 282
Chapter 17. Quantification of Telomerase Activity Using Telomeric Repeat Amplification Protocol 304
Part Three: GENE DISCOVERY 314
Chapter 18. Differential Display 316
Chapter 19. Single-Cell cDNA Libraries 326
Chapter 20. Whole Cell Assays 348
Chapter 21. Screening Differentially Displayed PCR Products by Single-Strand Conformation Polymorphism Gels 360
Chapter 22. Microsatellite Protocols 374
Chapter 23. Real-Time Quantitative PCR: Uses in Discovery Research 384
Chapter 24. Homology Cloning: A Molecular Taxonomy of the Archaea 396
Chapter 25. Cloning Mammalian Homologs of Drosophila Genes 412
Chapter 26. Cloning Human Homologs of Yeast Genes 424
Part Four: GENOMICS AND EXPRESSION PROFILING 446
Chapter 27. Cellular Transcriptome Analysis Using a Kinetic PCR Assay 448
Chapter 28. Parallel Analysis with Biological Chips 464
Chapter 29. High-Density cDNA Grids for Hybridization Fingerprinting Experiments 476
Chapter 30. Comparative Genomic Hybridization 492
Chapter 31. Genetic Footprinting and Functional Maps of the Yeast Genome 504
Chapter 32. Molecular Analysis of Microdissected Tissue: Laser Capture Microdissection 516
Chapter 33. Amplified Fragment Length Polymorphism: Studies on Plant Development 524
Chapter 34. A Fluorescent, Multiplex Solid-Phase Minisequencing Method for Genotyping Cytochrome P450 Genes 540
Chapter 35. The Cleavase I Enzyme for Mutation and Polymorphism Scanning 556
Index 570
Color Plate Section 586