CiNii Books - 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.

Table of Contents

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 Lefrancois, 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

Volume: : hardback ISBN 9780123751720

Description

This fully updated edition of the bestselling 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.

Table of Contents

PART I - Functional Genomics1. Analysis of Gene Function using DNA Microarrays2. An introduction to microarray data analysis and visualization3. Genome-wide approaches to monitor pre-mRNA splicing4. ChIP-Seq: Using high-throughput DNA sequencing for genome-wide identification of transcription factor binding sites5. Genome-wide mapping of nucleosomes in yeast6. Genome-wide translational profiling by ribosome footprintingPART II - Systematic Genetic Analysis7. Synthetic Genetic Array (SGA) Analysis in Saccharomyces cerevisiae and Schizosaccharomyces pombe8. Making temperature-sensitive mutants9. Quantitative Genetic Interaction Mapping using the E-MAP Approach10. Exploring gene function and drug action using chemogenomic dosage assaysPART III - Proteomics11. Yeast Expression Proteomics by High-Resolution Mass Spectrometry12. High-quality binary interactome mapping13. Quantitative analysis of protein phosphorylation on a system-wide scale by mass spectrometry based proteomics14. A Toolkit of Protein-fragment Complementation Assays for Studying and Dissecting Large-scale and Dynamic Protein-Protein Interactions in Living Cells15. Yeast Lipid Analysis and Quantification by Mass Spectrometry16. Mass Spectrometry-Based Metabolomics of YeastPART IV - Systems Analysis17. Imaging single mRNA molecules in yeast18. Reconstructing gene histories in Ascomycota fungi19. Experimental evolution in yeast: a practical guidePART V - Synthetic Biology20. Enhancing stress resistance and production phenotypes through transcriptome engineeringPART VI - Advances in Cytology/Biochemistry21. Visualizing yeast chromosomes and nuclear architecture22. Quantitative localization of chromosomal loci by immunofluorescence23. Spinning Disk Confocal Microscopy of Yeast24. Correlative GFP-immunoelectron microscopy in yeast25. Analyzing P-bodies and stress granules in Saccharomyces cerevisiae26. Analyzing mRNA expression using single mRNA resolution fluorescent in situ hybridization27. The Use of In Vitro Assays to Measure Endoplasmic Reticulum Associated Degradation (ERAD)28. A protein transformation protocol for introducing yeast prion particles into yeast29. Overexpression and Purification of Integral Membrane Proteins in Yeast30. Biochemical, cell biological and genetic assays to analyze amyloid and prion aggregation in yeastPART VII - Other Fungi31. Genetics and Molecular Biology in Candida albicans32. Molecular Genetics of Schizosaccharomyces pombe33. Applying Genetics and Molecular Biology to the Study of the Human Pathogen Cryptococcus neoformans34. The Fungal Genome Initiative and lessons learned from genome sequencing35. Ultradian metabolic cycles in yeast

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Guide to yeast genetics : functional genomics, proteomics, and other systems analysis

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