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  • 1
    Keywords: Human Genetics ; Human Genetics ; Springer eBooks
    Description / Table of Contents: Bisulfite Sequencing of RNA for Transcriptome-Wide Detection of 5-Methylcytosine -- Single-Molecule Analysis of RNA Dynamics in Living Cells Using Molecular Beacons -- Visualization of Xist Long Non-Coding RNA with Fluorescent CRISPR/CAS9 System -- HAMR: High-Throughput Annotation of Modified Ribonucleotides -- High-Resolution Mapping of N6-Methyladenosine Using m6A Crosslinking Immunoprecipitation Sequencing (m6A-CLIP-seq) -- Direct Chemical Biotinylation of RNA 5’-Ends Using a Diazo Reagent -- Identification of Methylated Transcripts Using the TRIBE Approach -- Decoding the Atlas of RNA Modifications from Epitranscriptome Sequencing Data -- Detection of MicroRNA-Mediated Target mRNA Cleavage and 3'-Uridylation in Human Cells by a SLA-RT-PCR Analysis -- Genome-Wide Annotation of circRNAs and Their Alternative Back-Splicing/Splicing with CIRCexplorer Pipeline -- Synthesis and Evaluation of Novel Neamine-Nucleoside Conjugates as Potential Antibiotic Targets for Escherichia coli 16S Ribosomal RNA -- Electron Microscope Detection of 5-Methylcytosine on DNA and RNA -- Immuno-Northern Blotting: Detection of Modified RNA Using Gel Separation and Antibodies to Modified Nucleosides -- LncVar:Deciphering Genetic Variations Associated with Long Non-Coding Genes -- Guided Reconstruction of Full-Length Isoforms from Short Reads by CIDANE -- Profiling of N6-Methyladenosine in Zika Virus RNA and Host Cellular mRNA -- Detection and Quantification of Pseudouridine in RNA -- 5-Methylcytosine Analysis by RNA-BisSeq -- RNA Modification Regulatory Genes in DNA Damage -- Dot Blot Analysis for Measuring Global N6-Methyladenosine Modification of RNA
    Abstract: This volume provides readers with the latest technologies to study changes in the epitranscriptome. The protocols described in this book explore both targeted and unbiased high-throughput analysis associated with post-transcriptional RNA modification. The chapters in this book also cover specific topics such as transcriptome-wide detection of 5-methylcytosine; HAMR; iRNA-2OM; genome-wide annotation of circRNAs; immune-northern blotting; and detection and quantification of pseudouridine in RNA. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and comprehensive, Epitranscriptomics: Methods and Protocols is an important resource for both expert and novice scientists who are interested in learning more about this field
    Pages: XII, 298 p. 57 illus., 41 illus. in color. : online resource.
    ISBN: 9781493988082
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  • 2
    Keywords: Medicine ; Human Genetics ; Biomedicine ; Human Genetics ; Springer eBooks
    Description / Table of Contents: Fluorescence Reporter-Based Genome-Wide RNA Interference Screening to Identify Alternative Splicing Regulators -- Tandem Affinity Purification Approach Coupled To Mass Spectrometry to Identify Post-translational Modifications of Histones Associated with Chromatin-binding Proteins -- Efficient Preparation of High-Complexity ChIP-Seq Profiles from Early Xenopus Embryos -- Systematic Discovery Of Chromatin-bound Protein Complexes from ChIP-seq Datasets -- Assay for Transposase-Accessible Chromatin with high throughput sequencing (ATAC-seq) Protocol for Zebrafish Embryos -- Establishment of time- and cell-specific RNAi in Caenorhabditis elegans -- Cell-penetrating Peptide-mediated Delivery of Cas9 Protein and Guide RNA for Genome Editing -- Epigenetic Analysis of Endocrine Cell Subtypes from Human Pancreatic Islets -- eIF3 Regulation of Protein Synthesis, Tumorigenesis, and Therapeutic Response -- High Resolution Gene Expression Profiling of RNA Synthesis, Processing, and Decay by Metabolic Labeling of Newly Transcribed RNA using 4-thiouridine -- Accurate Detection of Differential Expression and Splicing using Low-level Features -- Profiling Changes in Histone Post-translational Modifications by Top-Down Mass Spectrometry -- Determining if an mRNA is a Substrate of Nonsense-mediated mRNA Decay in Saccharomyces cerevisiae -- Optimizing In Vitro Pre-mRNA 3' Cleavage Efficiency: Reconstitution from Anion-Exchange Separated HeLa Cleavage Factors and from Adherent HeLa Cell Nuclear Extract -- Unbiased Interrogation of 3D Genome Topology using Chromosome Conformation Capture Coupled to High-throughput Sequencing (3C-Seq) -- Using an Inducible CRISPR-Cas9-KRAB Effector System to Dissect Transcriptional Regulation in Human Embryonic Stem Cells -- In vitro assay to Study Histone Ubiquitination during Transcriptional Regulation -- Determination of Alternate Splicing Events using Transcriptome Arrays -- Large-scale RNA Interference Screening to Identify Transcriptional Regulators of a Tumor Suppressor -- GeneTranscriptional Analysis-based Integrative Genomics Approach to Identify Tumor Promoting Metabolic Genes
    Abstract: This volume describes a variety of protocols that will allow the readers to study different aspects of transcriptional and posttranscriptional gene expression regulation in eukaryotic cells. Chapters focus on the latest use of CRISPRi and RNAi technologies for studying various aspects of transcriptional and posttranscriptional regulation and tools to navigate protocols on key bioinformatics. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls Authoritative and cutting-edge, Eukaryotic Transcription and Post-Transcription Gene Expression Regulation aims to ensure successful results in the further study of this vital field
    Pages: XI, 278 p. 49 illus., 29 illus. in color. : online resource.
    ISBN: 9781493965182
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