Yeast Functional Genomics, Softcover reprint of the original 1st ed. 2016 Methods and Protocols Methods in Molecular Biology Series, Vol. 1361
This volume provides a collection of protocols for the study of DNA-DNA contact maps, replication profiles, transcription rates, RNA secondary structures, protein-RNA interactions, ribosome profiling and quantitative proteomes and metabolomes. Written for the Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols and tips on troubleshooting and avoiding known pitfalls.
Authoritative and practical, Yeast Functional Genomics: Methods and Protocols aims to ensure successful results in the further study of this vital field.
1. Using RNA-seq for Analysis of Differential Gene Expression in Fungal Species
Can Wang, Markus S. Schröder, Stephen Hammel, and Geraldine Butler
2. Enhancing Structural Annotation of Yeast Genomes with RNA-Seq Data
Hugo Devillers, Nicolas Morin, and Cécile Neuvéglise
3. Pathogen Gene Expression Profiling During Infection Using a Nanostring Ncounter Platform
Wenjie Xu, Norma V. Solis, Scott G. Filler, and Aaron P. Mitchell
4. Comparative Transcriptomics in Yeasts
Dawn A. Thompson
5. Mapping the Transcriptome-Wide Landscape of RBP Binding sites using gPAR-CLIP-seq: Experimental Procedures
Ting Ha and John K. Kim
6. Mapping the Transcriptome-wide Landscape of RBP Binding Sites using gPAR-CLIP-seq: Bioinformatic Analysis
Mallory A. Freeberg and John K. Kim
7. Translation Analysis at the Genome Scale by Ribosome Profiling
Agnès Baudin-Baillieu, Isabelle Hatin, Rachel Legendre, and Olivier Namy
8. Biotin-Genomic Run-on (Bio-GRO): A High-Resolution Method for the Analysis of Nascent Transcription in Yeast
Antonio Jordán-Pla, Ana Miguel, Eva Serna, Vicent Pelechano, and José E. Pérez-Ortín
9. Genome-wide Probing of RNA Structures in Vitro Using Nucleases and Deep Sequencing
Yue Wan, Kun Qu, Zhengqing Ouyang and Howard Y. Chang
10. Genome-wide Chromatin Immunoprecipitation in Candida albicans and other Yeasts
Matthew B. Lohse, Pisiwat Kongsomboonvech, Maria Madrigal, Aaron D. Hernday, and Clarissa J. Nobile
11. ChIPseq in Yeast Species: from Chromatin Immumoprecipitation to High-Throughput Sequencing and Bioinformatics Data Analyses
Gaëlle Lelandais, Corinne Blugeon, and Jawad Merhej
12. Systematic Determination of Transcription factor DNA-binding Specificities in Yeast
Lourdes Peña-Castillo and Gwenael Badis
13. Generation and Analysis of Chromosomal Contact Maps of Yeast Species
Axel Cournac, Martial Marbouty, Julien Mozziconacci, and Romain Koszul
14. A Versatile Procedure to Generate Genome-Wide Spatio-Temporal Program of Replication in Yeast Species
Nicolas Agier and Gilles Fischer
15. Single-Step Affinity Purification (ssAP) and Mass Spectrometry of Macromolecular Complexes in the Yeast S. cerevisiae
Christian Trahan, Lisbeth-Carolina Aguilar, and Marlene Oeffinger
16. Label-Free Quantitative Proteomics in Yeast
Thibaut Léger, Camille Garcia, Mathieu Videlier, and Jean-Michel Camadro
17. Profiling of Yeast Lipids by Shotgun LipidomicsKlose Christian and Tarasov Kirill
18. Identification of Links between Cellular Pathways by Genetic Interaction Mapping (GIM)
Christophe Malabat and Cosmin Saveanu
19. On The Mapping of Epistatic Genetic Interactions in Natural Isolates: Combining Classical Genetics and Genomics
Jing Hou and Joseph Schacherer
20. Experimental Evolution and Resequencing Analysis of Yeast
Celia Payen and Maitreya J. Dunham
21. Reconstruction and Analysis of the Evolution of Modular Transcriptional Regulatory Programs using Arboretum
Sara A. Knaack, Dawn A. Thompson, and Sushmita Roy
22. Predicting Gene and Genomic Regulation in Saccharomyces cerevisiae, using the YEASTRACT Database: A Step By Step Guided Analysis
Miguel C. Teixeira, Pedro T. Monteiro, and Isabel Sá-Correia
Includes cutting-edge methods and protocols
Provides step-by-step detail essential for reproducible results
Contains key notes and implementation advice from the experts
Ouvrage de 406 p.
17.8x25.4 cm
Date de parution : 10-2015
Ouvrage de 406 p.
17.8x25.4 cm
Disponible chez l'éditeur (délai d'approvisionnement : 15 jours).
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