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Yeast Functional Genomics

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

Table of Contents

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    Book Overview
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    Chapter 1 Using RNA-seq for Analysis of Differential Gene Expression in Fungal Species.
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    Chapter 2 Enhancing Structural Annotation of Yeast Genomes with RNA-Seq Data.
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    Chapter 3 Pathogen Gene Expression Profiling During Infection Using a Nanostring nCounter Platform.
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    Chapter 4 Comparative Transcriptomics in Yeasts.
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    Chapter 5 Mapping the Transcriptome-Wide Landscape of RBP Binding Sites Using gPAR-CLIP-seq: Experimental Procedures.
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    Chapter 6 Mapping the Transcriptome-Wide Landscape of RBP Binding Sites Using gPAR-CLIP-seq: Bioinformatic Analysis.
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    Chapter 7 Translation Analysis at the Genome Scale by Ribosome Profiling.
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    Chapter 8 Biotin-Genomic Run-On (Bio-GRO): A High-Resolution Method for the Analysis of Nascent Transcription in Yeast.
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    Chapter 9 Genome-Wide Probing of RNA Structures In Vitro Using Nucleases and Deep Sequencing.
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    Chapter 10 Genome-Wide Chromatin Immunoprecipitation in Candida albicans and Other Yeasts.
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    Chapter 11 ChIPseq in Yeast Species: From Chromatin Immunoprecipitation to High-Throughput Sequencing and Bioinformatics Data Analyses.
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    Chapter 12 Systematic Determination of Transcription Factor DNA-Binding Specificities in Yeast.
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    Chapter 13 Generation and Analysis of Chromosomal Contact Maps of Yeast Species.
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    Chapter 14 A Versatile Procedure to Generate Genome-Wide Spatiotemporal Program of Replication in Yeast Species.
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    Chapter 15 Single-Step Affinity Purification (ssAP) and Mass Spectrometry of Macromolecular Complexes in the Yeast S. cerevisiae.
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    Chapter 16 Label-Free Quantitative Proteomics in Yeast.
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    Chapter 17 Profiling of Yeast Lipids by Shotgun Lipidomics.
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    Chapter 18 Identification of Links Between Cellular Pathways by Genetic Interaction Mapping (GIM).
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    Chapter 19 On the Mapping of Epistatic Genetic Interactions in Natural Isolates: Combining Classical Genetics and Genomics.
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    Chapter 20 Experimental Evolution and Resequencing Analysis of Yeast.
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    Chapter 21 Reconstruction and Analysis of the Evolution of Modular Transcriptional Regulatory Programs Using Arboretum.
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    Chapter 22 Predicting Gene and Genomic Regulation in Saccharomyces cerevisiae, using the YEASTRACT Database: A Step-by-Step Guided Analysis.
Attention for Chapter 9: Genome-Wide Probing of RNA Structures In Vitro Using Nucleases and Deep Sequencing.
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Mentioned by

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2 tweeters

Citations

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4 Dimensions

Readers on

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18 Mendeley
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Chapter title
Genome-Wide Probing of RNA Structures In Vitro Using Nucleases and Deep Sequencing.
Chapter number 9
Book title
Yeast Functional Genomics
Published in
Methods in molecular biology, January 2016
DOI 10.1007/978-1-4939-3079-1_9
Pubmed ID
Book ISBNs
978-1-4939-3078-4, 978-1-4939-3079-1
Authors

Wan, Yue, Qu, Kun, Ouyang, Zhengqing, Chang, Howard Y, Yue Wan, Kun Qu, Zhengqing Ouyang, Howard Y. Chang

Abstract

RNA structure probing is an important technique that studies the secondary and tertiary conformations of an RNA. While it was traditionally performed on one RNA at a time, recent advances in deep sequencing has enabled the secondary structure mapping of thousands of RNAs simultaneously. Here, we describe the method Parallel Analysis for RNA Structures (PARS), which couples double and single strand specific nuclease probing to high throughput sequencing. Upon cloning of the cleavage sites into a cDNA library, deep sequencing and mapping of reads to the transcriptome, the position of paired and unpaired bases along cellular RNAs can be identified. PARS can be performed under diverse solution conditions and on different organismal RNAs to provide genome-wide RNA structural information. This information can also be further used to constrain computational predictions to provide better RNA structure models under different conditions.

Twitter Demographics

The data shown below were collected from the profiles of 2 tweeters who shared this research output. Click here to find out more about how the information was compiled.

Mendeley readers

The data shown below were compiled from readership statistics for 18 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
China 1 6%
Norway 1 6%
Unknown 16 89%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 6 33%
Student > Doctoral Student 3 17%
Researcher 3 17%
Professor 2 11%
Professor > Associate Professor 2 11%
Other 1 6%
Unknown 1 6%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 7 39%
Agricultural and Biological Sciences 7 39%
Computer Science 1 6%
Immunology and Microbiology 1 6%
Medicine and Dentistry 1 6%
Other 1 6%

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 24 June 2016.
All research outputs
#5,736,152
of 7,940,332 outputs
Outputs from Methods in molecular biology
#2,655
of 5,635 outputs
Outputs of similar age
#151,618
of 242,399 outputs
Outputs of similar age from Methods in molecular biology
#159
of 328 outputs
Altmetric has tracked 7,940,332 research outputs across all sources so far. This one is in the 24th percentile – i.e., 24% of other outputs scored the same or lower than it.
So far Altmetric has tracked 5,635 research outputs from this source. They receive a mean Attention Score of 1.9. This one is in the 47th percentile – i.e., 47% of its peers scored the same or lower than it.
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We're also able to compare this research output to 328 others from the same source and published within six weeks on either side of this one. This one is in the 46th percentile – i.e., 46% of its contemporaries scored the same or lower than it.