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

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