Protocols for Gene Analysis

...recommended...A notes section that follows each methods section may be the most useful feature. These notes are like having the author right there explaining why certain things are done or not done, what variations may be tolerated or useful, what might go wrong, and how to remedy it. -Biopharm Manufacturing

• Basic Recombinant Dna Techniques.- Transformation of Bacteria by Electroporation.- Direct Cloning of Agtll cDNA Inserts Into a Plasmid Vector.- PCR Cloning Using T-Vectors.- Thermal Cycle Dideoxy DNA Sequencing.- In Vitro Mutagenesis.- Ordered Deletions Using Exonuclease III.- Site-Directed Mutagenesis Using a Double-Stranded DNA Template.- Site-Directed Mutagenesis Using a Uracil-Containing Phagemid Template.- Construction of Linker-Scanning Mutations by Oligonucleotide Ligation.- Construction of Linker-Scanning Mutations Using the Polymerase Chain Reaction.- Localized Random Polymerase Chain Reaction Mutagenesis.- Genomic Structure.- The Simultaneous Isolation of RNA and DNA from Tissues and Cultured Cells.- Physical Mapping of the Human Genome by Pulsed Field Gel Electrophoresis.- Field Inversion Gel Electrophoresis.- Enhanced Chemiluminescent Detection of Horseradish Peroxidase Labeled Probes.- Nonradioactive Oligonucleotide Probe Labeling.- Analysis of DNA Restriction Enzyme Digests by Two-Dimensional Electrophoresis in Agarose Gels.- Inverse Polymerase Chain Reaction.- Sequence Variations.- Use of Silver Staining to Detect Nucleic Acids.- A Nonradioactive Method for the Detection of Single-Strand Conformational Polymorphisms (SSCP).- Temperature Gradient Gel Electrophoresis (TGGE) for the Detection of Polymorphic DNA and RNA.- TGGE in Quantitative PCR of DNA and RNA.- The PGK-PCR Clonality Assay (PPCA).- Direct Sequencing of PCR Products.- Gene Expression.- The Use of Riboprobes for the Analysis of Gene Expression.- Quantification of Absolute Amounts of Cellular Messenger RNA by RNA-Excess Solution Hybridization.- Measurements of Rate of Transcription in Isolated Nuclei by Nuclear “Run-Off” Assay.- An RNA Polymerase II In Vitro Transcription System.- SIMapping Using Single-Stranded DNA Probes.- Single Primer-Mediated Polymerase Chain Reaction.- Protein-Dna Interactions.- In Vivo DNA Footprinting by Linear Amplification.- DNA Photofootprinting with Rh(phi)2bpy3+.- The Gel Retardation Assay.- The Southwestern Assay.- Cloning DNA Binding Proteins from cDNA Expression Libraries Using Oligonucleotide Binding Site Probes.- Protein Function.- 6xffis-Ni-NTA Chromatography as a Superior Technique in Recombinant Protein Expression/Purification.- Production of 35S-Labeled Proteins in E. coli and Their Use as Molecular Probes.- Preparation and Ligand Screening of a ?gt11 Lysogen Library.