Quantitative heteroduplex analysis for single nucleotide polymorphism genotyping

Analytical Biochemistry

Volumn 346, Issue 1, 2005, Pages 167-175

  Palais, Robert A ^a   Liew, Michael A ^b   Wittwer, Carl T ^c  

^a UNIVERSITY OF UTAH   (United States)

^b ARUP LABORATORIES   (United States)

^c UNIVERSITY OF UTAH SCHOOL OF MEDICINE   (United States)

Author keywords

Genotyping; Heteroduplex analysis; High resolution melting; Mixing; Nearest neighbor symmetry; Quantitative TGCE analysis; SNP; Spiking

Indexed keywords

CAPILLARY ELECTROPHORESIS; DNA; LIQUID CHROMATOGRAPHY; MELTING; MIXING; NUCLEOTIDES; POLYMORPHISM;

GENOTYPING; HETERODUPLEX ANALYSIS; HIGH RESOLUTION; NEAREST NEIGHBORS; QUANTITATIVE TGCE ANALYSIS; SPIKING;

POLYMERASE CHAIN REACTION;

DNA;

ARTICLE; CAPILLARY ELECTROPHORESIS; GENOTYPE; HETERODUPLEX ANALYSIS; HUMAN; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM; TEMPERATURE;

EID: 26844517352     PISSN: 00032697     EISSN: 10960309     Source Type: Journal    
DOI: 10.1016/j.ab.2005.08.010     Document Type: Article

References (17)

1. W.E. Highsmith Jr., Q. Jin, A.J. Nataraj, J.M. O'Connor, V.D. Burland, W.R. Baubonis, F.P. Curtis, N. Kusukawa, and M.M. Garner Use of a DNA toolbox for the characterization of mutation scanning methods. I: construction of the toolbox and evaluation of heteroduplex analysis Electrophoresis 20 6 1999 1186 1194
2. G. Ruano, and K.K. Kidd Modeling of heteroduplex formation during PCR from mixtures of DNA templates PCR Methods Appl. 2 1992 112 116
3. G. Ruano, A.S. Deinard, S. Tishkoff, and K.K. Kidd Detection of DNA sequence variation via deliberate heteroduplex formation from genomic DNAs amplified en masse in "population tubes" PCR Methods Appl. 4 1994 225 231
4. W. Xiao, and P.J. Oefner Denaturing high-performance liquid chromatography: A review Hum. Mutat. 17 6 2001 439 474
5. Q. Li, Z. Liu, H. Monroe, and C.T. Culiat Integrated platform for detection of DNA sequence variants using capillary array electrophoresis Electrophoresis 23 10 2002 1499 1511
6. C.N. Gundry, J.G. Vandersteen, G.H. Reed, R.J. Pryor, J. Chen, and C.T. Wittwer Amplicon melting analysis with labeled primers: a closed-tube method for differentiating homozygotes and heterozygotes Clin. Chem. 49 3 2003 396 406
7. C.T. Wittwer, G.H. Reed, C.N. Gundry, J.G. Vandersteen, and R.J. Pryor High-resolution genotyping by amplicon melting analysis using LCGreen Clin. Chem. 49 6, Pt. 1 2003 853 860
8. G.H. Reed, and C.T. Wittwer Sensitivity and specificity of single-nucleotide polymorphism scanning by high-resolution melting analysis Clin. Chem. 50 10 2004 1748 1754
9. J.T. McKinney, N. Longo, S.H. Hahn, D. Matern, P. Rinaldo, A.W. Strauss, and S. Dobrowolski Rapid, comprehensive screening of the human medium chain acyl-CoA dehydrogenase gene Mol. Genet. Metab. 82 2 2004 112 120
10. C. Willmore, J.A. Holden, L. Zhou, S. Tripp, C.T. Wittwer, and L.J. Layfield Detection of c-kit-activating mutations in gastrointestinal stromal tumors by high-resolution amplicon melting analysis Am. J. Clin. Pathol. 122 2 2004 206 216
11. S.F. Dobrowolski, J.T. McKinney, C. Amat di San Filippo, K. Giak Sim, B. Wilcken, and N. Longo Validation of dye-binding/high-resolution thermal denaturation for the identification of mutations in the SLC22A5 gene Hum. Mutat. 25 3 2005 306 313
12. L. Zhou, J. Vandersteen, L. Wang, T. Fuller, M. Taylor, B. Palais, and C.T. Wittwer High-resolution DNA melting curve analysis to establish HLA genotypic identity Tissue Antigens 64 2 2004 156 164
13. M. Liew, R. Pryor, R. Palais, C. Meadows, M. Erali, E. Lyon, and C. Wittwer Genotyping of single-nucleotide polymorphisms by high-resolution melting of small amplicons Clin. Chem. 50 7 2004 1156 1164
14. K.J. Breslauer, R. Frank, H. Blocker, and L.A. Marky Predicting DNA duplex stability from the base sequence Proc. Natl. Acad. Sci. USA 83 1986 3746 3750
15. N. Peyret, P.A. Seneviratne, H.T. Allawi, and J. SantaLucia Jr. Nearest-neighbor thermodynamics and NMR of DNA sequences with internal A:A, C:C, G:G, and T:T mismatches Biochemistry 38 1999 3468 3477
16. R.L. Margraf Genotyping hepatitis C virus by heteroduplex mobility analysis using temperature gradient capillary electrophoresis J. Clin. Microbiol. 42 10 2004 4545 4551
17. R. Graham, M. Liew, C. Meadows, E. Lyon, and C.T. Wittwer Distinguishing different DNA heterozygotes by high-resolution melting Clin. Chem. 51 7 2005 1295 1298