Cover image for Genomics protocols
Title:
Genomics protocols
Series:
Methods in molecular biology ; v. 175
Publication Information:
Totowa, N.J. : Humana Press, c2001
Physical Description:
xiv, 538 p. : ill ; 24 cm.
ISBN:
9780896037083

9780896037748

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30000010274378 QH440.5 G46 2001 Open Access Book Book
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Summary

Summary

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).


Table of Contents

Paul A. LyonsStephen P. Bryant and Mathias N. ChianoDeborah A. Nickerson and Natali Kolker and Scott L. Taylor and Mark J. RiederFarideh Mirzayans and Michael A. WalterMario A. J. A. Hermsen and Marjan M. Weiss and Gerrit A. Meijer and Jan P. A. BaakSangdun Choi and Ung-Jin KimSean J. Humphray and Susan J. Knaggs and Ioannis RagoussisMargaret A. LevershaPanagiotis DeloukasYutaka Suzuki and Sumio SuganoPanagiotis DeloukasGunther Zehetner and Maria Pack and Katja SchaferDaniela TonioloMartin C. Wapenaar and Johan T. Den DunnenDavid E. Harris and Lee MurphyYvonne J. K. Edwards and Simon M. BrocklehurstGreg ElgarOliver Dorian von SteinChristine Wallrapp and Thomas M. GressMichael P. StarkeyNicolas Pollet and Christof NiehrsXing Jian Lou and Mark Schena and Frank T. Horrigan and Richard M. Lawn and Ronald W. DavisYvonne J. K. Edwards and Amanda CottageAnne K. Voss and Tim ThomasAhmed MansouriIlya G. Serebriiskii and Garabet G. Toby and Russell L. Finley, Jr. and Erica A. GolemisTerry J. Amiss and Richard Jude SamulskiDonald S. AnsonRuth Gjerset and Ali Haghighi and Svetlana Lebedeva and Dan MercolaLeonidas A. Phylactou
Prefacep. v
Contributorsp. xi
1 Construction of Microsatellite-Based, High-Resolution Genetic Maps in the Mousep. 1
2 Genetic Analysis of Complex Traitsp. 11
3 Sequence-Based Detection of Single Nucleotide Polymorphismsp. 29
4 Genomic Mismatch Scanning for the Mapping of Genetic Traitsp. 37
5 Detection of Chromosomal Abnormalities by Comparative Genomic Hybridizationp. 47
6 Construction of a Bacterial Artificial Chromosome Libraryp. 57
7 Contiguation of Bacterial Clonesp. 69
8 Mapping of Genomic Clones by Fluorescence In Situ Hybridizationp. 109
9 Map Integration: From a Genetic Map to a Physical Gene Map and Ultimately to the Sequence Mapp. 129
10 Construction of Full-Length-Enriched cDNA Libraries: The Oligo-Capping Methodp. 143
11 Construction of Transcript Maps by Somatic Cell/Radiation Hybrid Mapping: The Human Gene Mapp. 155
12 Preparation and Screening of High-Density cDNA Arrays with Genomic Clonesp. 169
13 Direct Selection of cDNAs by Genomic Clonesp. 189
14 Exon Trapping: Application of a Large-Insert Multiple-Exon-Trapping Systemp. 201
15 Sequencing Bacterial Artificial Chromosomesp. 217
16 Finding Genes in Genomic Nucleotide Sequences by Using Bioinformaticsp. 235
17 Gene Identification Using the Pufferfish, Fugu rubripes, by Sequence Scanningp. 249
18 Isolation of Differentially Expressed Genes Through Subtractive Suppression Hybridizationp. 263
19 Isolation of Differentially Expressed Genes by Representational Difference Analysisp. 279
20 Expression Profiling and the Isolation of Differentially Expressed Genes by Indexing-Based Differential Displayp. 295
21 Expression Profiling by Systematic High-Throughput In Situ Hybridization to Whole-Mount Embryosp. 309
22 Expression Monitoring Using cDNA Microarrays: A General Protocolp. 323
23 Prediction of Protein Structure and Function by Using Bioinformaticsp. 341
24 Identification of Novel Genes by Gene Trap Mutagenesisp. 377
25 Determination of Gene Function by Homologous Recombination Using Embryonic Stem Cells and Knockout Micep. 397
26 Genomic Analysis Utilizing the Yeast Two-Hybrid Systemp. 415
27 Methods for Adeno-Associated Virus-Mediated Gene Transfer into Musclep. 455
28 Retroviral-Mediated Gene Transductionp. 471
29 Gene Therapy Approaches to Sensitization of Human Prostate Carcinoma to Cisplatin by Adenoviral Expression of p53 and by Antisense Jun Kinase Oligonucleotide Methodsp. 495
30 Ribozyme Gene Therapyp. 521
Indexp. 531