Mass Spectrometry and Genomic Analysis

1. Front Matter

   Pages i-xv

   PDF

2. Single-nucleotide Polymorphism Analysis by MALDI-TOF Mass Spectrometry

   • T. J. Griffin, L. M. Smith

   Pages 1-15

3. SNP Genotyping by MALDI-TOF Mass Spectrometry

   • L. A. Haff, A. C. Belden, L. R. Hall, P. L. Ross, I. P. Smirnov

   Pages 16-32

4. Massarray™: Highly Accurate and Versatile High Throughput Analysis of Genetic Variations

   • Hubert Köster

   Pages 33-49

5. The Good Assay

   • S. Sauer, D. Lechner, I. G. Gut

   Pages 50-65

6. Microchip Analysis of DNA Sequence by Contiguous Stacking of Oligonucleotides and Mass Spectrometry

   • P. H. Tsatsos, V. Vasiliskov, A. Mirzabekov

   Pages 66-75

7. Short Oligonucleotide Mass Analysis (SOMA)

   • P. E. Jackson, M. D. Friesen, J. D. Groopman

   Pages 76-92

8. Proteomics and Mass Spectrometry

   • W. V. Bienvenut, M. Müller, P. M. Palagi, E. Gasteiger, M. Heller, E. Jung et al.

   Pages 93-145

9. Back Matter

   Pages 147-149

   PDF

76 2. Short Oligonucleotide Mass Analysis 76 2. 1. Method Outline 76 2. 2. Design of PCR Primers and Fragments for Analysis 78 2. 3. Typical PCR Reaction Conditions 79 3. Electrospray Ionisation Mass Spectrometry 79 Formation of Ions 3. 1. 79 3. 2. Tandem Mass Spectrometry 79 3. 3. Typical ESI-MS Settings for SOMA 80 4. Purification Procedures 80 4. 1. Phenol/Chloroform Extraction and Ethanol Precipitation 80 4. 2. In-line HPLC Purification 81 5. Genotyping Using SOMA 81 5. 1. APC Genotyping in Human Subjects 81 5. 2. APC Genotyping in Min Mice 85 5. Mutation Detection Using SOMA 86 6. 1. Analysis of p53 Mutations in Liver Cancer Patients 86 6. 1. 1. p53 Mutations in Liver Tumours 87 6. 1. 2. p53 Mutations in Plasma Samples 88 7. Advantages and Disadvantages of SOMA 89 8. Future Perspectives 90 9. Acknowledgements 91 10. References 91 CHAPTER 7 WV. Bienvenut, M. Müller, PM. Palagi, E. Gasteiger, M. Heller, E. Jung, M. Giron, R. Gras, S. Gay, PA. Binz, G J. Hughes, JC. Sanchez, RD. Appel, DF. Hochstrasser Proteomics and Mass Spectrometry: Some Aspects and Recent Developments 1. Introduction to Proteomics 93 2. Protein Biochemical and Chemical Processing Followed by Mass Spectrometric Analysis 94 2. 1. 2-DE Gel Protein Separation 95 Protein Identification Using Peptide Mass Fingerprinting and Robots 96 2. 2. 2. 2. 1. MALDI-MS Analysis 98 2. 2. 2. MS/MS Analysis 102 Improvement of the Identification by Chemical Modification of Peptides 106 2. 2. 3.

• Allele
• Base
• DNA
• Mass Spectrometry
• Nucleotide
• PCR
• SNP
• Single Nucleotide Polymorphism
• Termination
• genes

• Oxagen Limited, Abingdon, UK

  J. Nicholas Housby

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