Coupling single base extension to a spectral codification tool for increased throughput screening

Journal of Biotechnology

Volumn 154, Issue 4, 2011, Pages 199-204

  Giestas, Letícia ^a   Lima, João Carlos ^a   Baptista, Pedro V ^a  

^a UNIVERSIDADE NOVA DE LISBOA   (Portugal)

Author keywords

FRET; Single base extension; SNP genotyping; Spectral codification

Indexed keywords

EVALUATION ALGORITHM; FRET; NEW STRATEGY; REACTION TUBES; RESONANCE ENERGY TRANSFER; SINGLE NUCLEOTIDE POLYMORPHISMS; SINGLE-BASE EXTENSIONS; SNP GENOTYPING; SPECTRAL CODIFICATION; THROUGHPUT CAPABILITY; THROUGHPUT SCREENING;

ENERGY TRANSFER; FLUOROPHORES; GENES; PROBES;

THROUGHPUT;

NUCLEOTIDE; OLIGONUCLEOTIDE;

ALGORITHM; ALLELE; ANALYTIC METHOD; ARTICLE; CALIBRATION; DONOR; ENERGY TRANSFER; FORSTER RESONANCE ENERGY TRANSFER; GENE LOCUS; GENOTYPE; HETEROZYGOSITY; HOMOZYGOSITY; PRIORITY JOURNAL; SCORING SYSTEM; SINGLE NUCLEOTIDE POLYMORPHISM;

FLUORESCENCE RESONANCE ENERGY TRANSFER; GENOTYPE; POLYMORPHISM, SINGLE NUCLEOTIDE;

EID: 79960415695     PISSN: 01681656     EISSN: 18734863     Source Type: Journal    
DOI: 10.1016/j.jbiotec.2011.05.012     Document Type: Article

References (16)

1. Chen J., Iannone M.A., Li M.S., Taylor J.D., Rivers P., Nelsen A.J., Slentz-Kesler K.A., Roses A., Weiner M.P. A microsphere-based assay for multiplexed single nucleotide polymorphism analysis using single base chain extension. Genome Res. 2000, 10:549-557.
2. Chen X., Kwok P.Y. Template-directed dye-terminator incorporation (TDI) assay: a homogeneous DNA diagnostic method based on fluorescence resonance energy transfer. Nucleic Acids Res. 1997, 25(2):347-353.
3. Chen X., Sullivan P.F. Single nucleotide polymorphism genotyping: biochemistry, protocol, cost and throughput. Pharmacogenomics J. 2003, 3:77-96.
4. Duan X., Wang S., Li Z. Conjugated polyelectrolyte-DNA complexes for multi-color and one-tube SNP genotyping assays. Chem. Commun. 2008, 11:1302-1304.
5. Giestas L., Ferreira G.N.M., Baptista P.V., Lima J.C. Multiplexed spectral coding for simultaneous detection of DNA hybridization reactions based on FRET. Sens. Actuators B: Chem. 2008, 134:146-157.
6. Giestas L., Petrov V., Baptista P.V., Lima J.C. General FRET-based coding for application in multiplexing methods. Photochem. Photobiol. Sci. 2009, 8:1130-1138.
7. Kim S., Misra A. SNP genotyping: technologies and biomedical applications. Annu. Rev. Biomed. Eng. 2007, 9:289-320.
8. Hirschhorn J.N., Sklar P., Lindblad-Toh K., Lim Y.M., Ruiz-Gutierrez M., Bolk S., Langhorst B., Schaffner S., Winchester E., Lander E.S. SBE-TAGS: an array-based method for efficient single-nucleotide polymorphism genotyping. Proc. Natl. Acad. Sci. U.S.A. 2000, 97:12164-12169.
9. Hirschhorn J.N., Daly M.J. Genome-wide association studies for common diseases and complex traits. Nat. Rev. Genet. 2005, 6:95-108.
10. Kakiharaa F., Kurebayashia Y., Tojoc Y., Tajimac H., Hasegawab S., Yohda M. MagSNiPer: a new single nucleotide polymorphism typing method based on single base extension, magnetic separation, and chemiluminescence. Anal. Biochem. 2005, 341(1):77-82.
11. Landegren U., Nilsson M., Kwok P.Y. Reading bits of genetic information: methods for single-nucleotide polymorphism analysis. Genome Res. 1998, 8:769-776.
12. Pati N., Schowinsky V., Kokanovic O., Magnuson V., Ghosh S. A comparison between SNaPshot, pyrosequencing, and biplex invader SNP genotyping methods: accuracy, cost, and throughput. J. Biochem. Biophys. Methods 2004, 60(1):1-12.
13. Sobrino B., Lareu M., Brion M., Carracedo A. SNP genotyping with single base extension-tag microarrays. Int. Cong. Ser. 2004, 1261:331-333.
14. Syvänen A.C. Accessing genetic variation: genotyping single nucleotide polymorphisms. Nat. Rev. Genet. 2001, 2:930-942.
15. Tsuchihashi Z., Dracopoli N.C. Progress in high throughput SNP genotyping methods. Pharmacogenomics J. 2002, 2:103-110.
16. Vreeland W.N., Meagher R.J., Barron A.E. Multiplexed high-throughput genotyping by single-base extension and end-labeled free-solution electrophoresis. Anal. Chem. 2002, 74(17):4328-4333.