Genome Instability

1. The A-like Faker Assay for Measuring Yeast Chromosome III StabilityCarolina A. Novoa, J. Sidney Ang, and Peter C. Stirling 2. The Chromosome Transmission Fidelity Assay for Measuring Chromosome Loss in Yeast Supipi Duffy and Philip Hieter 3. Measuring Mutation Rates using the Luria-Delbrück Fluctuation AssayGregory I. Lang 4. Molecular Genetic Characterization of Mutagenesis Using a Highly Sensitized Single-Stranded DNA Reporter System in Budding YeastKin Chan5. Analyzing Genome Rearrangements in Saccharomyces cerevisiaeAnjana Srivatsan, Christopher D. Putnam, and Richard D. Kolodner 6. High Resolution Mapping of Modified DNA Nucleobases using Excision Repair EnzymesMonica Ransom, D. Suzi Bryan and Jay R. Hesselberth 7. Integrated Microarray-based Tools for Detection of Genomic DNA Damage and Repair MechanismsPatrick van Eijk, Yumin Teng, Mark R. Bennet, Katie E. Evans, James R. Powell, Richard M. Webster, and Simon H. Reed 8. Study of UV-induced DNA Repair Factor Recruitment: Kinetics and Dynamics Sertic S., Roma S., Plevani P., Lazzaro F. , and Muzi-Falconi M. 9. Inserting Site-specific DNA Lesions into Whole GenomesVincent Pagès and Robert P Fuchs 10. A qPCR-based Protocol to Quantify DSB ResectionMatteo Ferrari, Shyam Twayana, Federica Marini, and Achille Pellicioli 11. Alkaline Denaturing Southern Blot Analysis to Monitor Double-strand Break ProcessingChiara Vittoria Colombo, Luca Menin, and Michela Clerici 12. Single Molecule Analysis of Resection TracksPablo Huertas and Andrés Cruz-García 13. Mapping DNA Breaks by Next-generation SequencingLaura Baranello, Fedor Kouzine, Damian Wojtowicz, Kairong Cui, Keji Zhao,Teresa M Przytycka, Giovanni Capranico, and David Levens14. Genome-wide Profiling of DNA Double-strand Breaks by the BLESS and BLISS MethodsReza Mirzazadeh, Tomasz Kallas, Magda Bienko, and Nicola Crosetto 15. DNA Replication Profiling using Deep SequencingXanita Saayman, Cristina Ramos-Pérez, and Grant W Brown 16. Quantitative Bromodeoxyuridine Immunoprecipitation Analyzed by High-Throughput Sequencing (qBrdU-seq or QBU)Joanna E. Haye-Bertolozzi and Oscar M. Aparicio  17. Strand-specific Analysis of DNA Synthesis and Proteins Association with DNA Replication Forks in Budding YeastChuanhe Yu, Haiyun Gan, and Zhiguo Zhang 18. Analysis of Replicative Polymerase Usage by Ribonucleotide IncorporationAndrea Keszthelyi, Izumi Miyabe, Katie Ptasinska, Yasukazu Daigaku, Karel Naiman, and Antony M. Carr 19. Dynamic Architecture of Eukaryotic DNA Replication Forks in vivo, Visualized by Electron Microscopy Ralph Zellweger and Massimo Lopes 20. A Molecular Toolbox to Engineer Site-Specific DNA Replication PerturbationNicolai B. Larsen, Ian D. Hickson, and Hocine W. Mankouri  21. Single Cell Gel Electrophoresis for the Detection of Genomic Ribonucleotides Barbara Kind, Christine Wolf, Kerstin Engel, Alexander Rapp,M. Cristina Cardoso, and  Min Ae Lee-Kirsch 22. Measuring the Levels of Ribonucleotides Embedded in Genomic DNAMeroni A., Nava G.M., Sertic S., Plevani P., Muzi-Falconi M.and Lazzaro F. 23. Mapping Ribonucleotides Incorporated into DNA by Hydrolytic End-SequencingClinton D. Orebaugh, Scott A. Lujan, Adam B. Burkholder, Anders R Clausen, and Thomas A. Kunkel 24. Detection of DNA-RNA Hybrids in vivoMaría García-Rubio, Sonia I. Barroso, and Andrés Aguilera 25. Analysis of de novo Telomere Addition by Southern BlotDiego Bonetti and Maria Pia Longhese 26. Assays to Study Repair of Inducible DNA Double Strand Breaks at TelomeresRoxanne Oshidari and Karim Mekhail 27. Telomerase RNA Imaging in Budding Yeast and Human Cells by Fluorescent in situ HybridizationDavid Guérit, Maxime Lalonde, and Pascal Chartrand 28. Methods to Study Repeat Fragility and Instability in Saccharomyces cerevisiaeErica J. Polleys and Catherine H. Freudenreich29. Quantitative Analysis of the Rates for Repeat-mediated Genome Instability in a Yeast Experimental SystemElina A. Radchenko, Ryan J. McGinty, Anna Y. Aksenova, Alexander J. Neil, and Sergei M. Mirkin1 30. Measuring Dynamic Behaviour of Trinucleotide Repeat Tracts in vivo in Saccharomyces cerevisiaeGregory M. Williams and Jennifer A. Surtees 31. The Detection and Analysis of Chromosome Fragile SitesVictoria A. Bjerregaard, Özgün Özer, Ian D. Hickson, and Ying Liu 32. Imaging of DNA Ultrafine Bridges in Budding YeastOliver Quevedo and Michael Lisby 33. Detection of Ultra-Fine Anaphase Bridges Anna H. Bizard, Christian F. Nielsen, and Ian D. Hickson  34. A Chromatin Fiber Analysis Pipeline to Model DNA Synthesis and Structures in Fission YeastSarah A. Sabatinos and Marc D. Green 35. Long-term Imaging of DNA Damage and Cell Cycle Progression in Budding Yeast Using Spinning Disk Confocal MicroscopyRiccardo Montecchi and Etienne Schwob 36. The CellClamper: A Convenient Microuidic Device for Time-Lapse Imaging of YeastGregor W. Schmidt, Olivier Frey, and Fabian Rudolf 37. Characterization of Structural and Configurational Properties of DNA by Atomic Force Microscopy Alice Meroni, Federico Lazzaro, Marco Muzi-Falconi, and Alessandro Podestà 38. Genome-wide Quantitative Fitness Analysis (QFA) of Yeast CulturesEva-Maria Holstein, Conor Lawless, Peter Banks, and David Lydall 39. Rewiring the Budding Yeast Proteome using Synthetic Physical InteractionsGuðjón Ólafsson and Peter H. Thorpe 40. Reporter-based Synthetic Genetic Array Analysis: a Functional Genomics Approach for Investigating Transcript or Protein Abundance Using Fluorescent Proteins in Saccharomyces cerevisiaeHendrikje Göttert, Mojca Mattiazzi Usaj, Adam P. Rosebrock, and Brenda J. Andrews 41. Statistical Analysis and Quality Assessment of ChIP-seq Data with DROMPARyuichiro Nakato and Katsuhiko Shirahige 42. Quantitative Analysis of DNA Damage Signaling Responses to Chemical and Genetic PerturbationsFrancisco M. Bastos de Oliveira, Dongsung Kim, Michael Lanz, and Marcus B. Smolka... Mehr