DNA Repair Protocols by Lotte BjergbækDNA Repair Protocols by Lotte Bjergbæk

DNA Repair Protocols

EditorLotte Bjergbæk

Hardcover | September 1, 2012

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Current knowledge of the mechanisms that regulate DNA repair has grown significantly over the past years with technology advances such as RNA interference, advanced proteomics and microscopy as well as high throughput screens. The third edition of DNA Repair Protocols covers various aspects of the eukaryotic response to genomic insult including recent advanced protocols as well as standard techniques used in the field of DNA repair. Both mammalian and non-mammalian model organisms are covered in the book, and many of the techniques can be applied with only minor modifications to other systems than the one described. Written in the highly successful Methods in Molecular Biology? series format, the chapters include the kind of detailed description and implementation advice that is crucial for getting optimal results in the laboratory.  Thorough and intuitive, DNA Repair Protocols, Third Edition provides expert guidance for DNA repair, recombination, and replication.
Title:DNA Repair ProtocolsFormat:HardcoverDimensions:585 pagesPublished:September 1, 2012Publisher:Humana PressLanguage:English

The following ISBNs are associated with this title:

ISBN - 10:1617799971

ISBN - 13:9781617799976

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Table of Contents

1. DNA repair: Front and Center and Not Going Away!Vilhelm A. Bohr Part I. Identification of Repair Genes and Generation of Repair Mutants 2. Identification of Genes Required for Damage Survival using a Cell Based RNAi Screen against the Drosophila GenomeDashnamoorthy Ravi and Alexander James Roy Bishop 3. Isolating Genes Involved with Genotoxic Drug Response in the Nematode Caenorhabditis elegans using Genome-wide RNAi Screening  Lone Vedel Schøler, Tine Hørning Møller, Steffen Nørgaard, Lotte Vestergaard and Anders Olsen. 4. Establishment of the DNA Repair-defective Mutants in DT40 CellsMasamichi Ishiai, Emi Uchida, and Minoru Takata  Part II. Assessing DNA Damage and Repair 5. Electrophoretic Mobility Shift Assays forProtein-DNA Complexes Involved in DNA RepairChun Tsai, PhD, Vaughn Smider, Byung Joon Hwang,  and Gilbert Chu 6. The Comet Assay A Sensitive Genotoxicity Test for the Detection of DNA Damage and RepairGünter Speit and Andreas Rothfuss 7. Detection of DNA Damage by Comet Fluorescence in situ Hybridization (Comet-FISH) W. Schlörmann and M. Glei 8. Quantitative DNA Damage and Repair Measurement with the Yeast Comet AssayRui Oliveira and Björn Johansson 9. Analysis of DNA Damage and Repair in Nuclear and Mitochondrial DNA of Animal Cells using Quantitative PCRAmy M. Furda,  Amanda Smith Bess,  Joel N. Meyer, Bennett Van Houten Part III. Repair of Incorrect or Damaged DNA Bases 10. In vitro DNA Mismatch Repair in Human CellsLiya Gu, Charles M. Ensor, and Guo-Min Li 11. Eukaryotic DNA Mismatch Repair in vitroFenghua Yuan, Limin Song, Fengsong Liu, Liya Gu, Yanbin Zhang 12.  Immuno-slot Blot Assay for Detection of UVR-mediated DNA DamageMahsa Karbaschi, Nigel J. Brady, Mark D. Evans, and Marcus S. Cooke  13.  Quantification of DNA Photoproductions in Mammalian Cell DNAUsing RadioimmunoassayThomas R. Berton and David L. Mitchell 14. Measuring the Formation and Repair of UV Damage at the DNA Sequence Level by Ligation-mediated PCRAhmad Besaratinia and Gerd P. Pfeifer 15. Construction of Plasmids Containing Site-specific DNA Interstrand Crosslinks for Biochemical and Cell Biological StudiesMilica Enoiu, The Vinh Ho, David T. Long, Johannes C. Walter, and Orlando D. Schärer 16. Replication-coupled DNA Interstrand Crosslink Repair in  Xenopus Egg ExtractsPuck Knipscheer, Markus Räschle, Orlando D. Schärer, and Johannes C. Walter 17.  In Vitro Base Excision Repair using Mammalian Cell ExtractsJason L. Parsons and Grigory L. Dianov, 18.  Using Arabidopsis Cell Extracts to Monitor Repair of DNA Base Damage in vitroDolores Córdoba-Cañero, Teresa Roldán-Arjona and Rafael R. Ariza 19.  In vitro monitoring of Base Excision Repair in Saccharomyces cerevisiaeSimone Moertl and Fred Ahne 20. Mitochondrial Base Excision Repair AssaysRicardo Gredilla and Tinna Stevnsner Part IV. DNA Strand Breakage and Repair 21. O-Hydroxylamine-Coupled Alkaline Gel Electrophoresis Assay for the Detection and Measurement of DNA Single-Strand BreaksApril M. Luke and Jun Nakamura 22.  DNA Double Stand Break Damage and Repair Assessed by Pulse-field Gel ElectrophoresisHelen E. Bryant 23. Quantitative Amplification of Single Stranded DNA (QAOS) Eva-Maria Holstein and David Lydall 24. Simple, Non-radioactive Measurement of Single-stranded DNA at Telomeric, Sub-telomeric and Genomic Loci in Budding YeastJames M Dewar and David Lydall 25. Monitoring DNA Recombination Initiated by HO EndonucleaseNeal Sugawara and James E. Haber  26. Monitoring I-SceI Induced Double Strand Break Repair in DT40 CellsDavid du Plessis and Julian E. Sale 27. I-SceI-based Assays to Examine Distinct Repair Outcomes of Mammalian Chromosomal Double Strand BreaksAmanda Gunn and Jeremy M. Stark 28. Studying Repair of a Single Protein-bound Nick in vivo using the Flp-nick SystemIda Nielsen, Anni H. Andersen, and Lotte Bjergbæk 29. Measurement of Diversification in the Immunoglobulin Light Chain Gene of DT40 CellsJulian E. Sale 30. Live cell microscopy of DNA damage response in Saccharomyces cerevisiaeSonia Silva, Irene Gallina, Nadine Eckert-Boulet and Michael Lisby 31. Use of Gene Targeting to Study Recombination in Mammalian Cell DNARepair MutantsJennifer J. Rahn, Gerald M. Adair and Rodney S. Nairn 32. In vitro Rejoining of Double Strand Breaks in Genomic DNAGeorge Iliakis, Emil Mladenov and Nge Cheong 33. An In Vitro DNA Double-Strand Break Repair Assay Based on End Joining of Defined Duplex OligonucleotidesKamal Datta, Shubhadeep Purkayasth, Ronald D. Neumann, and Thomas A. Winters  Part V. DNA Damage Tolerance and Checkpoints 34. Assays of Bypass Replication of Genotoxic Lesions in Cell-Free ExtractsNana Nikolaishvili-Feinberg and Marila Cordeiro-Stone 35. Quantitative Measurement of Translesion DNA Synthesis in Mammalian CellsOmer Ziv, Noam Diamant, Sigal Shachar, Ayal Hendel and Zvi Livneh 36. Detection of PCNA Modifications in Saccharomyces cerevisiaeAdelina A. Davies and Helle D. Ulrich 37. In vitro PCNA Modification AssaysJoanne L. Parker and Helle D. Ulrich 38. Analysis of Inhibition of DNA Replication in Irradiated Cells using the SV40 Based in vitro assay of DNA ReplicationGeorge Iliakis, Emil Mladenov, Ya Wang and Hong Yan Wang 39. CHK1 Kinase Activity AssayHongyan Wang and Ya Wang  40. Histone H2AX Phosphorylation: A Marker for DNA DamageArishya Sharma Kamini Singh, and Alexandru Almasan