Includes cutting-edge methods and protocols for the study of mRNA decay

Provides step-by-step detail essential for reproducible results

Contains key notes and implementation advice from the experts

5'bromouridine IP Chase (BRIC)-Seq to Determine RNA Half Lives.- Determining mRNA Decay Rates Using RNA Approach to Equilibrium Sequencing (RATE-Seq).- Metabolic Labeling of Newly Synthesized RNA with 4sU to in Parallel Assess RNA Transcription and Decay.- Measuring mRNA Decay in Budding Yeast Using Single Molecule FISH.- PAR-CLIP for Discovering Target Sites of RNA-Binding Proteins.- Characterizing mRNA Sequence Motifs in the 3'UTR Using GFP Reporter Constructs.- iCLIP of the PIWI Protein Aubergine in Drosophila Embryos.- Integration of ENCODE RNAseq and eCLIP Data Sets.- Identifying miRNA Targets Using AgoRIP-Seq.- Integrated Analysis of miRNA and mRNA Expression Profiles to Identify miRNA Targets.- Identifying RISC Components Using Ago2 Immunoprecipitation and Mass Spectrometry.- Using Tet-Off Cells and RNAi Knockdown to Assay mRNA Decay.- Identifying Cellular Nonsense-Mediated mRNA Decay (NMD) Targets: Immunoprecipitation of Phosphorylated UPF1 Followed by RNA Sequencing(p-UPF1 RIP-Seq).- Generation of Cell Lines Stably Expressing a Fluorescent Reporter of Nonsense-Mediated mRNA Decay Activity.- Reactivation Assay to Identify Direct Targets of the Nonsense-Mediated mRNA Decay Pathway in Drosophila.- Studying Nonsense-Mediated mRNA Decay in Mammalian Cells Using a Multicolored Bioluminescence-Based Reporter System.