Cancer Genomics and Proteomics: Methods and Protocols

Cover......Page 1
Frontmatter......Page 2
1 Reciprocal Subtraction Differential RNA Display (RSDD) - An Efficient Technology for Cloning Differentially Expressed Genes......Page 16
2 Cloning Differentially Expressed Genes Using Rapid Subtraction Hybridization (RaSH)......Page 30
3 The Application of Differential Display as a Gene Profiling Tool......Page 45
4 Serial Analysis of Gene Expression (SAGE)......Page 55
5 Gene Expression Profile Analysis of Tumors......Page 81
6 cDNA Microarray and Bioinformatic Analysis of Nuclear Factor-κB Related Genes in Squamous Cell Carcinoma......Page 94
7 Gene Profiling Uncovers Retinoid Target Genes......Page 113
8 Complete Open Reading Frame (C-ORF) Technique - Rapid and Efficient Method for Obtaining Complete Protein Coding Sequences......Page 134
9 Chromatin Immunoprecipitation Assays - Molecular Analysis of Chromatin Modification and Gene Regulation......Page 145
10 Manipulating Genes and Gene Copy Number by Bacterial Artificial Chromosomes Transfection......Page 163
11 Molecular Cytogenetic Applications in Analysis of the Cancer Genome......Page 174
12 Monitoring Methylation and Gene Expression in Cancer......Page 195
13 The Use of Phage Display Peptide Libraries for Basic and Translational Research......Page 211
14 Yeast and Mammalian Two-Hybrid Systems for Studying Protein–Protein Interactions......Page 222
15 Ribonomic and Short Hairpin RNA Gene Silencing Methods to Explore Functional Gene Programs Associated With Tumor Growth Arrest......Page 233
16 Surface-Epitope Masking (SEM) - An Immunological Subtraction Approach for Developing Monoclonal Antibodies Targeting Surface-Expressed Molecules......Page 251
17 Approaches for Monitoring Signal Transduction Changes in Normal and Cancer Cells......Page 265
18 PKR in Innate Immunity, Cancer, and Viral Oncolysis......Page 283
19 Analysis of Transformation and Tumorigenicity Using Mouse Embryonic Fibroblast Cells......Page 308
20 Analysis of Growth Properties and Cell Cycle Regulation Using Mouse Embryonic Fibroblast Cells......Page 316
21 Reverse Phase Protein Microarrays for Monitoring Biological Responses......Page 325
22 Protein Crystallization......Page 341
Index......Page 354