Transposons and Retrotransposons: Methods and Protocols

ISBN-13: 9781493980338 / Angielski / Miękka / 2018 / 434 str.

Jose Luis Garcia Perez

Spis treści

Study of Transposable Elements and their Genomic Impact.- Bacterial Group II Introns: Identification and Mobility Assay.- In silico Methods to Identify Exapted Transposable Element Families.- Retrotransposon Capture Sequencing (RC-seq): A Targeted, High-Throughput Approach to Resolve Somatic L1 Retrotransposition in Humans.- Long Interspersed Element Sequencing (L1-Seq): A Method to Identify Somatic LINE-1 Insertions in the Human Genome.- Combining Amplification Typing of L1 Active Subfamilies (ATLAS) with High Throughput Sequencing.- RNA-seq Analysis to Measure the Expression of SINE Retroelements.- Qualitative and Quantitative Assays of Transposition and Homologous Recombination of the Retrotransposon Tf1 in Schizosaccharomyces pombe.- LINE Retrotransposition Assays in Saccharomyces cerevisiae.- LINE-1 Cultured Cell Retrotransposition Assay.- L1 Retrotransposition in Neural Progenitor Cells.- Characterization of Engineered L1 Retrotransposition Events: The Recovery Method.- SINE Retrotransposition: Evaluation of Alu Activity and Recovery of de novo Inserts.- The Engineered SVA Trans-Mobilization Assay.- Detection of LINE-1 RNAs by Northern Blot.- Monitoring Long Interspersed Nuclear Element 1 Expression during Mouse Embryonic Stem Cells Differentiation.- Immuno-Detection of Human LINE-1 Expression in Cultured Cells and Human Tissues.- Cellular Localization of Engineered Human LINE-1 RNA and Proteins.- Purification of L1-ribonucleoprotein Particles (L1-RNPs) from Cultured Human Cells.- Characterization of L1-RiboNucleoprotein Particles.- LEAP: L1 Element Amplification Protocol.- Biochemical Approaches to Study LINE-1 Reverse Transcriptase Activity In Vitro.- Methylated DNA Immunoprecipitation Analysis of Mammalian Endogenous Retroviruses.- Profiling DNA Methylation and Hydroxymethylation at Retrotransposable Elements.- A Large-Scale Functional Screen to Identify Epigenetic Repressors of Retrotransposon Expression.- Reprogramming of Human Fibroblasts to Induced Pluripotent Stem Cells with Sleeping Beauty Transposon-based Stable Gene Delivery.