Genomics Protocols

• Whole Genome Amplification with Phi29 DNA Polymerase to Enable Genetic or Genomic Analysis of Samples of Low DNA Yield.- Scanning for DNA Variants by Denaturant Capillary Electrophoresis.- Identification of SNPs, or Mutations in Sequence Chromatograms.- BeadArray-Based Genotyping.- Microsatellite-Based Candidate Gene Linkage Analysis Studies.- Full Complexity Genomic Hybridization on 60-mer Oligonucleotide Microarrays for Array Comparative Genomic Hybridization (aCGH).- Detection of Copy Number Changes at Multiple Loci in DNA Prepared from Formalin-Fixed, Paraffin-Embedded Tissue by Multiplex Ligation-Dependent Probe Amplification.- Application of Microarrays for DNA Methylation Profiling.- Genomewide Identification of Protein Binding Locations Using Chromatin Immunoprecipitation Coupled with Microarray.- Transcriptional Profiling of Small Samples in the Central Nervous System.- Quantitative Expression Profiling of RNA from Formalin-Fixed, Paraffin-Embedded Tissues Using Randomly Assembled Bead Arrays.- Expression Profiling of microRNAs in Cancer Cells: Technical Considerations.- Identification of Disease Biomarkers by Profiling of Serum Proteins Using SELDI-TOF Mass Spectrometry.- The Applicability of a Cluster of Differentiation Monoclonal Antibody Microarray to the Diagnosis of Human Disease.- Protein Profiling Based on Two-Dimensional Difference Gel Electrophoresis.- Quantitative Protein Profiling by Mass Spectrometry Using Isotope-Coded Affinity Tags.- Quantitative Protein Profiling by Mass Spectrometry Using Label-Free Proteomics.- Using 2D-LC-MS/MS to Identify Francisella tularensis Peptides in Extracts from an Infected Mouse Macrophage Cell Line.- Baculovirus Expression Vector System: An Emerging Host for High-Throughput Eukaryotic Protein Expression.- Coimmunoprecipitation and Proteomic Analyses.- Tandem Affinity Purification Combined with Mass Spectrometry to Identify Components of Protein Complexes.- Mammalian Two-Hybrid Assay for Detecting Protein-Protein Interactions in Vivo.- Detection of Protein-Protein Interactions in Live Cells and Animals with Split Firefly Luciferase Protein Fragment Complementation.- Subcellular Localization of Intracellular Human Proteins by Construction of Tagged Fusion Proteins and Transient Expression in COS-7 Cells.- GeneFAS: GeneFAS: A Tool for the Prediction of Gene function Using Multiple Sources of Data.- Comparative Genomics-Based Prediction of Protein Function.- Design, Manufacture, and Assay of the Efficacy of siRNAs for Gene Silencing.

From the reviews of the second edition:"The main purpose is to present current protocols in genomic research, and the book provides a comprehensive update on this area of research … . The book is written primarily for scientists in the field of genomic research. … presents a good balance between the different aspects involved in the study of functional genomics. It also provides a number of updated protocols for practicing investigators in the field of genomic research. … a valuable companion to all researchers in the field of genomic research." (Ruben Mestril, Doody’s Review Service, January, 2009)