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mRNA Decay

Overview of attention for book
Cover of 'mRNA Decay'

Table of Contents

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    Book Overview
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    Chapter 1 5′-Bromouridine IP Chase (BRIC)-Seq to Determine RNA Half-Lives
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    Chapter 2 Determining mRNA Decay Rates Using RNA Approach to Equilibrium Sequencing (RATE-Seq)
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    Chapter 3 Metabolic Labeling of Newly Synthesized RNA with 4sU to in Parallel Assess RNA Transcription and Decay
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    Chapter 4 Measuring mRNA Decay in Budding Yeast Using Single Molecule FISH
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    Chapter 5 PAR-CLIP for Discovering Target Sites of RNA-Binding Proteins
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    Chapter 6 Characterizing mRNA Sequence Motifs in the 3′-UTR Using GFP Reporter Constructs
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    Chapter 7 iCLIP of the PIWI Protein Aubergine in Drosophila Embryos
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    Chapter 8 Integration of ENCODE RNAseq and eCLIP Data Sets
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    Chapter 9 Identifying miRNA Targets Using AGO-RIPseq
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    Chapter 10 Integrated Analysis of miRNA and mRNA Expression Profiles to Identify miRNA Targets
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    Chapter 11 Identifying RISC Components Using Ago2 Immunoprecipitation and Mass Spectrometry
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    Chapter 12 Using Tet-Off Cells and RNAi Knockdown to Assay mRNA Decay
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    Chapter 13 Identifying Cellular Nonsense-Mediated mRNA Decay (NMD) Targets: Immunoprecipitation of Phosphorylated UPF1 Followed by RNA Sequencing (p-UPF1 RIP−Seq)
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    Chapter 14 Generation of Cell Lines Stably Expressing a Fluorescent Reporter of Nonsense-Mediated mRNA Decay Activity
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    Chapter 15 Reactivation Assay to Identify Direct Targets of the Nonsense-Mediated mRNA Decay Pathway in Drosophila
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    Chapter 16 Studying Nonsense-Mediated mRNA Decay in Mammalian Cells Using a Multicolored Bioluminescence-Based Reporter System
Attention for Chapter 1: 5′-Bromouridine IP Chase (BRIC)-Seq to Determine RNA Half-Lives
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Chapter title
5′-Bromouridine IP Chase (BRIC)-Seq to Determine RNA Half-Lives
Chapter number 1
Book title
mRNA Decay
Published in
Methods in molecular biology, January 2018
DOI 10.1007/978-1-4939-7540-2_1
Pubmed ID
Book ISBNs
978-1-4939-7539-6, 978-1-4939-7540-2
Authors

Toshimichi Yamada, Naoto Imamachi, Rena Onoguchi-Mizutani, Katsutoshi Imamura, Yutaka Suzuki, Nobuyoshi Akimitsu

Abstract

Analysis of RNA stability at genome-wide level is an advanced method in RNA biology that examines the half-life of each transcript. In particular, a pulse-labeling method using uridine analogs enables the determination of half-life of each transcript under physiologically undisturbed conditions. The technique involves pulse labeling of endogenous RNAs in mammalian cells with 5'-bromouridine (BrU), followed by measuring the chronological decrease of BrU-labeled RNAs using deep sequencing (BRIC-seq). Here, we describe a detailed protocol and technical tips for BRIC-seq.

Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 16 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 16 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 3 19%
Student > Bachelor 2 13%
Professor 2 13%
Student > Doctoral Student 2 13%
Student > Master 2 13%
Other 3 19%
Unknown 2 13%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 8 50%
Medicine and Dentistry 3 19%
Agricultural and Biological Sciences 2 13%
Immunology and Microbiology 1 6%
Unknown 2 13%