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Plant Functional Genomics

Overview of attention for book
Cover of 'Plant Functional Genomics'

Table of Contents

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    Book Overview
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    Chapter 1 Epigenome Profiling of Specific Plant Cell Types Using a Streamlined INTACT Protocol and ChIP-seq.
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    Chapter 2 Whole-genome DNA methylation profiling with nucleotide resolution.
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    Chapter 3 High-Throughput Nuclease-Mediated Probing of RNA Secondary Structure in Plant Transcriptomes
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    Chapter 4 Genome-Wide Mapping of DNase I Hypersensitive Sites in Plants.
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    Chapter 5 Characterization of In Vivo DNA-Binding Events of Plant Transcription Factors by ChIP-seq: Experimental Protocol and Computational Analysis.
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    Chapter 6 Identification of Direct Targets of Plant Transcription Factors Using the GR Fusion Technique.
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    Chapter 7 Ribosome profiling: a tool for quantitative evaluation of dynamics in mRNA translation.
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    Chapter 8 Tissue-Specific Gene Expression Profiling by Cell Sorting
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    Chapter 9 Translating Ribosome Affinity Purification (TRAP) Followed by RNA Sequencing Technology (TRAP-SEQ) for Quantitative Assessment of Plant Translatomes.
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    Chapter 10 Rapid Immunopurification of Ribonucleoprotein Complexes of Plants
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    Chapter 11 Metabolomic profiling of plant tissues.
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    Chapter 12 Targeted Plant Genome Editing via the CRISPR/Cas9 Technology.
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    Chapter 13 QTL Mapping Using High-Throughput Sequencing
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    Chapter 14 Quantitating Plant MicroRNA-Mediated Target Repression Using a Dual-Luciferase Transient Expression System.
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    Chapter 15 Persistent virus-induced gene silencing in asymptomatic accessions of Arabidopsis.
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    Chapter 16 A User’s Guide to the Arabidopsis T-DNA Insertion Mutant Collections
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    Chapter 17 Genome-Wide Association Mapping in Plants Exemplified for Root Growth in Arabidopsis thaliana
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    Chapter 18 Tilling by sequencing.
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    Chapter 19 SHOREmap v3.0: Fast and Accurate Identification of Causal Mutations from Forward Genetic Screens
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    Chapter 20 Software-Assisted Stacking of Gene Modules Using GoldenBraid 2.0 DNA-Assembly Framework.
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    Chapter 21 Ligation-Independent Cloning for Plant Research
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    Chapter 22 Gene Functional Analysis Using Protoplast Transient Assays
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    Chapter 23 Descriptive vs. Mechanistic Network Models in Plant Development in the Post-Genomic Era.
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    Chapter 24 Analysis and visualization of RNA-Seq expression data using RStudio, Bioconductor, and Integrated Genome Browser
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    Chapter 25 Constructing simple biological networks for understanding complex high-throughput data in plants.
Attention for Chapter 9: Translating Ribosome Affinity Purification (TRAP) Followed by RNA Sequencing Technology (TRAP-SEQ) for Quantitative Assessment of Plant Translatomes.
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Chapter title
Translating Ribosome Affinity Purification (TRAP) Followed by RNA Sequencing Technology (TRAP-SEQ) for Quantitative Assessment of Plant Translatomes.
Chapter number 9
Book title
Plant Functional Genomics
Published in
Methods in molecular biology, January 2015
DOI 10.1007/978-1-4939-2444-8_9
Pubmed ID
25757773
Book ISBNs
978-1-4939-2443-1, 978-1-4939-2444-8
Authors

Mauricio A Reynoso, Piyada Juntawong, Marcos Lancia, Flavio A Blanco, Julia Bailey-Serres, María Eugenia Zanetti, Mauricio A. Reynoso, Flavio A. Blanco, Reynoso, Mauricio A., Juntawong, Piyada, Lancia, Marcos, Blanco, Flavio A., Bailey-Serres, Julia, Zanetti, María Eugenia

Abstract

Translating Ribosome Affinity Purification (TRAP) is a technology to isolate the population of mRNAs associated with at least one 80S ribosome, referred as the translatome. TRAP is based on the expression of an epitope-tagged version of a ribosomal protein and the affinity purification of ribosomes and associated mRNAs using antibodies conjugated to agarose beads. Quantitative assessment of the translatome is achieved by direct RNA sequencing (RNA-SEQ), which provides accurate quantitation of ribosome-associated mRNAs and reveals alternatively spliced isoforms. Here we present a detailed procedure for TRAP, as well as a guide for preparation of RNA-SEQ libraries (TRAP-SEQ) and a primary data analysis. This methodology enables the study of translational dynamic by assessing rapid changes in translatomes, at organ or cell-type level, during development or in response to endogenous or exogenous stimuli.

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X Demographics

The data shown below were collected from the profile of 1 X user 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 137 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
United Kingdom 2 1%
France 1 <1%
Argentina 1 <1%
Unknown 133 97%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 36 26%
Researcher 18 13%
Student > Master 16 12%
Student > Bachelor 10 7%
Student > Doctoral Student 8 6%
Other 17 12%
Unknown 32 23%
Readers by discipline Count As %
Agricultural and Biological Sciences 54 39%
Biochemistry, Genetics and Molecular Biology 30 22%
Neuroscience 6 4%
Immunology and Microbiology 4 3%
Medicine and Dentistry 3 2%
Other 7 5%
Unknown 33 24%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 1. 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 12 March 2015.
All research outputs
#20,741,488
of 23,340,595 outputs
Outputs from Methods in molecular biology
#10,119
of 13,338 outputs
Outputs of similar age
#298,811
of 355,802 outputs
Outputs of similar age from Methods in molecular biology
#655
of 1,005 outputs
Altmetric has tracked 23,340,595 research outputs across all sources so far. This one is in the 1st percentile – i.e., 1% of other outputs scored the same or lower than it.
So far Altmetric has tracked 13,338 research outputs from this source. They receive a mean Attention Score of 3.4. This one is in the 1st percentile – i.e., 1% of its peers scored the same or lower than it.
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