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Nuclear Bodies and Noncoding RNAs

Overview of attention for book
Cover of 'Nuclear Bodies and Noncoding RNAs'

Table of Contents

  1. Altmetric Badge
    Book Overview
  2. Altmetric Badge
    Chapter 1 Visualization of lncRNA by Single-Molecule Fluorescence In Situ Hybridization
  3. Altmetric Badge
    Chapter 2 Super-Resolution Imaging of Nuclear Bodies by STED Microscopy.
  4. Altmetric Badge
    Chapter 3 High-Resolution 3D DNA FISH Using Plasmid Probes and Computational Correction of Optical Aberrations to Study Chromatin Structure at the Sub-megabase Scale.
  5. Altmetric Badge
    Chapter 4 Time-Lapse Imaging of Nuclear Bodies
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    Chapter 5 Visualization of Nucleic Acids with Synthetic Exciton-Controlled Fluorescent Oligonucleotide Probes
  7. Altmetric Badge
    Chapter 6 Live CLEM Imaging to Analyze Nuclear Structures at High Resolution
  8. Altmetric Badge
    Chapter 7 Ultrastructural Analysis of Nuclear Bodies Using Electron Microscopy
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    Chapter 8 Analyses of Nuclear Proteins and Nucleic Acid Structures Using Atomic Force Microscopy.
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    Chapter 9 Genome-Wide Co-Localization Screening of Nuclear Body Components Using a Fluorescently Tagged FLJ cDNA Clone Library.
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    Chapter 10 Purification of Specific Chromatin Regions Using Oligonucleotides: Capture Hybridization Analysis of RNA Targets (CHART).
  12. Altmetric Badge
    Chapter 11 RNA Antisense Purification (RAP) for Mapping RNA Interactions with Chromatin.
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    Chapter 12 In Situ Dissection of RNA Functional Subunits by Domain-Specific Chromatin Isolation by RNA Purification (dChIRP).
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    Chapter 13 Extracting, Enriching, and Identifying Nuclear Body Sub-Complexes Using Label-Based Quantitative Mass Spectrometry.
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    Chapter 14 Studying RNA-Binding Protein Interactions with Target mRNAs in Eukaryotic Cells: Native Ribonucleoprotein Immunoprecipitation (RIP) Assays
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    Chapter 15 Cross-Linking and Immunoprecipitation of Nuclear RNA-Binding Proteins
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    Chapter 16 Purification of Noncoding RNA and Bound Proteins Using FLAG Peptide-Conjugated Antisense-Oligonucleotides.
  18. Altmetric Badge
    Chapter 17 MMCT-Mediated Chromosome Engineering Technique Applicable to Functional Analysis of lncRNA and Nuclear Dynamics
  19. Altmetric Badge
    Chapter 18 Reconstitution of Nucleocytoplasmic Transport Using Digitonin-Permeabilized Cells
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    Chapter 19 Genome-Wide Analysis of Long Noncoding RNA Turnover.
  21. Altmetric Badge
    Chapter 20 Knockdown of Nuclear-Retained Long Noncoding RNAs Using Modified DNA Antisense Oligonucleotides.
  22. Altmetric Badge
    Chapter 21 siRNA Screening of Nuclear Proteins
Attention for Chapter 19: Genome-Wide Analysis of Long Noncoding RNA Turnover.
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Chapter title
Genome-Wide Analysis of Long Noncoding RNA Turnover.
Chapter number 19
Book title
Nuclear Bodies and Noncoding RNAs
Published in
Methods in molecular biology, January 2015
DOI 10.1007/978-1-4939-2253-6_19
Pubmed ID
25555590
Book ISBNs
978-1-4939-2252-9, 978-1-4939-2253-6
Authors

Tani H, Imamachi N, Mizutani R, Imamura K, Kwon Y, Miyazaki S, Maekawa S, Suzuki Y, Akimitsu N, Hidenori Tani, Naoto Imamachi, Rena Mizutani, Katsutoshi Imamura, Yeondae Kwon, Satoru Miyazaki, Sho Maekawa, Yutaka Suzuki, Nobuyoshi Akimitsu, Tani, Hidenori, Imamachi, Naoto, Mizutani, Rena, Imamura, Katsutoshi, Kwon, Yeondae, Miyazaki, Satoru, Maekawa, Sho, Suzuki, Yutaka, Akimitsu, Nobuyoshi

Abstract

Genome-wide analysis for determining RNA turnover is an advanced method in RNA biology that examines the specific half-life of nuclear noncoding RNA (ncRNA). In particular, a pulse-labeling method using uridine analogs enables the determination of RNA stability under physiologically undisturbed conditions. The technique involves pulse labeling of endogenous RNAs in mammalian cells with 5'-bromo-uridine (BrU), followed by measuring the chronological decrease of BrU-labeled RNAs using deep sequencing. The method is called BrU immunoprecipitation chase assay (BRIC) or BRIC through deep sequencing (BRIC-seq). Here, we describe a detailed protocol and technical tips for BRIC-seq.

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X Demographics

X Demographics

The data shown below were collected from the profiles of 3 X users who shared this research output. Click here to find out more about how the information was compiled.
 Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 61 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 61 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 18 30%
Student > Bachelor 11 18%
Student > Master 9 15%
Researcher 8 13%
Student > Doctoral Student 3 5%
Other 2 3%
Unknown 10 16%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 25 41%
Agricultural and Biological Sciences 14 23%
Neuroscience 3 5%
Pharmacology, Toxicology and Pharmaceutical Science 2 3%
Chemistry 2 3%
Other 3 5%
Unknown 12 20%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 2. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 20 April 2022.
All research outputs
#13,901,936
of 23,577,654 outputs
Outputs from Methods in molecular biology
#3,798
of 13,353 outputs
Outputs of similar age
#177,438
of 356,410 outputs
Outputs of similar age from Methods in molecular biology
#251
of 1,004 outputs
Altmetric has tracked 23,577,654 research outputs across all sources so far. This one is in the 39th percentile – i.e., 39% of other outputs scored the same or lower than it.
So far Altmetric has tracked 13,353 research outputs from this source. They receive a mean Attention Score of 3.4. This one has gotten more attention than average, scoring higher than 70% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 356,410 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 48th percentile – i.e., 48% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 1,004 others from the same source and published within six weeks on either side of this one. This one has gotten more attention than average, scoring higher than 74% of its contemporaries.

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