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Yeast Functional Genomics

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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 12: Systematic Determination of Transcription Factor DNA-Binding Specificities in Yeast.
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Chapter title
Systematic Determination of Transcription Factor DNA-Binding Specificities in Yeast.
Chapter number 12
Book title
Yeast Functional Genomics
Published in
Methods in molecular biology, January 2016
DOI 10.1007/978-1-4939-3079-1_12
Pubmed ID
Book ISBNs
978-1-4939-3078-4, 978-1-4939-3079-1
Authors

Peña-Castillo, Lourdes, Badis, Gwenael, Lourdes Peña-Castillo, Gwenael Badis

Abstract

Understanding how genes are regulated, decoding their "regulome", is one of the main challenges of the post-genomic era. Here, we describe the in vitro method we used to associate cis-regulatory sites with cognate trans-regulators by characterizing the DNA-binding specificity of the vast majority of yeast transcription factors using Protein Binding Microarrays. This approach can be implemented to any given organism.

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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 6 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 6 100%

Demographic breakdown

Readers by professional status Count As %
Researcher 4 67%
Student > Ph. D. Student 1 17%
Other 1 17%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 4 67%
Agricultural and Biological Sciences 1 17%
Medicine and Dentistry 1 17%
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 21 October 2015.
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#20,294,248
of 22,830,751 outputs
Outputs from Methods in molecular biology
#9,917
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Outputs of similar age
#330,601
of 393,554 outputs
Outputs of similar age from Methods in molecular biology
#1,053
of 1,470 outputs
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