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Single Nucleotide Polymorphisms - Pui-Yan Kwok

Contents


Contributors ........................................................................ ix
1 SNPs: Why Do We Care?
Lisa D. Brooks ............................................................. 1
2 Denaturing High-Performance Liquid Chromatography
Andreas Premstaller and Peter J. Oefner .............. 15
3 SNP Detection and Allele Frequency Determination
by SSCP
Tomoko Tahira, Akari Suzuki, Yoji Kukita,
and Kenshi Hayashi .............................................. 37
4 Conformation-Sensitive Gel Electrophoresis
Arupa Ganguly........................................................... 47
5 Detection of Mutations in DNA by Solid-Phase
Chemical Cleavage Method: A Simplified Assay
Chinh T. Bui, Jeffrey J. Babon, Andreana
Lambrinakos, and Richard G. H. Cotton ............... 59
6 SNP Discovery by Direct DNA Sequencing
Pui-Yan Kwok and Shenghui Duan......................... 71
7 Computational SNP Discovery in DNA Sequence Data
Gabor T. Marth........................................................... 85
8 Genotyping SNPs With Molecular Beacons
Salvatore A. E. Marras, Fred Russell Kramer,
and Sanjay Tyagi ................................................. 111
9 SNP Genotyping by the 5'-Nuclease Reaction
Kenneth J. Livak...................................................... 129

10 Genotyping SNPs by Minisequencing Primer
Extension Using Oligonucleotide Microarrays
Katarina Lindroos, Ulrika Liljedahl, and
Ann-Christine Syvänen ........................................ 149
11 Quantitative Analysis of SNPs in Pooled DNA
Samples by Solid-Phase Minisequencing
Charlotta Olsson, Ulrika Liljedahl,
and Ann-Christine Syvänen ............................... 167
12 Homogeneous Primer Extension Assay
With Fluorescence Polarization Detection
Tony M. Hsu and Pui-Yan Kwok ............................ 177
13 Pyrosequencing for SNP Genotyping
Mostafa Ronaghi ..................................................... 189
14 Homogeneous Allele-Specific PCR
in SNP Genotyping
Søren Germer and Russell Higuchi ...................... 197
15 Oligonucleotide Ligation Assay
Jonas Jarvius, Mats Nilsson,
and Ulf Landegren ............................................... 215
16 Invader Assay for SNP Genotyping
Victor Lyamichev and Bruce Neri ......................... 229
17 MALDI-TOF Mass Spectrometry-Based
SNP Genotyping
Niels Storm, Brigitte Darnhofer-Patel,
Dirk van den Boom, and Charles P. Rodi..........241

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