Guide to Yeast Genetics: Functional Genomics, Proteomics and Other Systems Analysis book cover

Guide to Yeast Genetics: Functional Genomics, Proteomics and Other Systems Analysis

This fully updated edition of the best-selling three-part Methods in Enzymology series, Guide to Yeast Genetics and Molecular Cell Biology is specifically designed to meet the needs of graduate students, postdoctoral students, and researchers by providing all the up-to-date methods necessary to study genes in yeast. Procedures are included that enable newcomers to set up a yeast laboratory and to master basic manipulations. This volume serves as an essential reference for any beginning or experienced researcher in the field.


Biochemists, geneticists, molecular biologists, cell biologists, and microbiologists.

Included in series
Methods in Enzymology

Paperback, 944 Pages

Published: March 2010

Imprint: Academic Press

ISBN: 978-0-12-375171-3


  • Praise for the first edition:
    "...this is an excellent collection of methods that is certain to be an important handbook for yeast researchers."--Will Prinz, National Institutes of Health for ANALYTICAL BIOCHEMISTRY (April 2003)


  • PART I - Functional Genomics

    1.Analysis of Gene Function using DNA Microarrays

    Andrew P. Capaldi

    2.An introduction to microarray data analysis and visualization

    Gregg B. Whitworth

    3. Genome-wide approaches to monitor pre-mRNA splicing

    Maki Inada and Jeff Pleiss

    4. ChIP-Seq: Using high-throughput DNA sequencing for genome-wide identification of transcription factor binding sites

    Philippe Lefrançois, Wei Zheng and Michael Snyder

    5. Genome-wide mapping of nucleosomes in yeast

    Oliver J. Rando

    6. Genome-wide translational profiling by ribosome footprinting

    Nicholas T. Ingolia

    PART II - Systematic Genetic Analysis

    7. Synthetic Genetic Array (SGA) Analysis in Saccharomyces cerevisiae and Schizosaccharomyces pombe

    Anastasia Baryshnikova, Michael Costanzo, Scott Dixon, Franco J. Vizeacoumar, Chad L. Myers, Brenda Andrews and Charles Boone

    8. Making temperature-sensitive mutants

    Shay Ben-Aroya, Xuewen Pan, Jef D. Boeke and Philip Hieter

    9. Quantitative Genetic Interaction Mapping using the E-MAP Approach

    Sean R. Collins, Assen Roguev and Nevan J. Krogan

    10. Exploring gene function and drug action using chemogenomic dosage assays

    Elke Ericson, Shawn Hoon, Robert P. St. Onge, Guri Giaever and Corey Nislow

    PART III - Proteomics

    11. Yeast Expression Proteomics by High-Resolution Mass Spectrometry

    Tobias C. Walther, Jesper V. Olsen and Matthias Mann

    12. High-quality binary interactome mapping

    Matija Dreze, Dario Monachello, Claire Lurin, Michael E. Cusick, David E. Hill, March Vidal, and Pascal Braun

    13. Quantitative analysis of protein phosphorylation on a system-wide scale by mass spectrometry based proteomics

    Bernd Bodenmiller and Rudi Aebersold

    14. A Toolkit of Protein-fragment Complementation Assays for Studying and Dissecting Large-scale and Dynamic Protein-Protein Interactions in Living Cells

    Stephen W. Michnick, Po-Hien Ear, Christian Landry, Mohan K. Malleshaiah and Vincent Messier

    15. Yeast Lipid Analysis and Quantification by Mass Spectrometry

    Xue Li Guan, Isabelle Riezman, Markus R. Wenk and Howard Riezman

    16. Mass Spectrometry-Based Metabolomics of Yeast

    Christopher A. Crutchfield, Wenyun Lu, Eugene Melamud, and Joshua D. Rabinowitz


    PART IV - Systems Analysis

    17. Imaging single mRNA molecules in yeast

    Hyun Youk, Arjun Raj and Alexander van Oudenaarden

    18. Reconstructing gene histories in Ascomycota fungi

    IlanWapinski and Aviv Regev

    19. Experimental evolution in yeast: a practical guide

    Maitreya J. Dunham

    PART V - Synthetic Biology

    20. Enhancing stress resistance and production phenotypes through transcriptome engineering

    Felix H. Lam, Franz S. Hartner, Gerald R. Fink, and Gregory Stephanopoulos

    PART VI - Advances in Cytology/Biochemistry

    21. Visualizing yeast chromosomes and nuclear architecture

    Peter Meister, Lutz R. Gehlen, Elisa Varela, Veronique Kalck and Susan M. Gasser

    22. Quantitative localization of chromosomal loci by immunofluorescence

    Donna Garvey Brickner, William Light and Jason H. Brickner

    23. Spinning Disk Confocal Microscopy of Yeast

    Kurt Thorn

    24. Correlative GFP-immunoelectron microscopy in yeast

    Christopher Buser and Kent McDonald

    25. Analyzing P-bodies and stress granules in Saccharomyces cerevisiae

    J Ross Buchan, Tracy Nissan and Roy Parker

    26. Analyzing mRNA expression using single mRNA resolution fluorescent in situ hybridization

    Daniel Zenklusen and Robert H Singer

    27. The Use of In Vitro Assays to Measure Endoplasmic Reticulum Associated Degradation (ERAD)

    Jeffrey L. Brodsky

    28. A protein transformation protocol for introducing yeast prion particles into yeast

    Motomasa Tanaka


    29. Overexpression and Purification of Integral Membrane Proteins in Yeast

    Franklin A. Hays, Zygy Roe-Zurz, and Robert M. Stroud

    30. Biochemical, cell biological and genetic assays to analyze amyloid and prion aggregation in yeast

    Simon Alberti, Randal Halfmann and Susan Lindquist

    PART VII - Other Fungi

    31. Genetics and Molecular Biology in Candida albicans

    Hernday, A.D., Noble, S. M., Mitrovich, Q.M., and Johnson, A.D.

    32. Molecular Genetics of Schizosaccharomyces pombe

    Sarah A. Sabatinos and Susan L. Forsburg

    33. Applying Genetics and Molecular Biology to the Study of the Human Pathogen Cryptococcus neoformans

    Cheryl D. Chun and Hiten D. Madhani

    34. The Fungal Genome Initiative and lessons learned from genome sequencing

    Christina A. Cuomo and Bruce W. Birren

    35. Ultradian metabolic cycles in yeast

    Benjamin Tu


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