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Literature DB >> 9094133

Enhanced discrimination of single nucleotide polymorphisms by artificial mismatch hybridization.

Abstract

In order to increase the discrimination of single nucleotide polymorphisms in DNA hybridization, artificial mismatches are inserted into probe oligonucleotides using the base analog 3-nitropyrrole. Differences in thermal stability (delta Tm) between hybrids formed with normal and single-nucleotide-variant DNA targets are increased by as much as 200% over conventional hybridization, and are strongly dependent upon the spacing between mismatches. The increased specificity is demonstrated by hybridization analysis and allele-specific amplification within the HLA-DRB locus.

Entities: Chemical Gene

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Year: 1997 PMID： 9094133 DOI： 10.1038/nbt0497-331

Source DB: PubMed Journal: Nat Biotechnol ISSN： 1087-0156 Impact factor: 54.908

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Cited

29 in total

Review 1. Survey and summary: The applications of universal DNA base analogues.

Authors: D Loakes
Journal: Nucleic Acids Res Date: 2001-06-15 Impact factor: 16.971

2. Electronic detection of nucleic acids: a versatile platform for molecular diagnostics.

Authors: R M Umek; S W Lin; J Vielmetter; R H Terbrueggen; B Irvine; C J Yu; J F Kayyem; H Yowanto; G F Blackburn; D H Farkas; Y P Chen
Journal: J Mol Diagn Date: 2001-05 Impact factor: 5.568

3. Optimization of probe length and the number of probes per gene for optimal microarray analysis of gene expression.

Authors: Cheng-Chung Chou; Chun-Houh Chen; Te-Tsui Lee; Konan Peck
Journal: Nucleic Acids Res Date: 2004-07-08 Impact factor: 16.971

4. Strong positional preference in the interaction of LNA oligonucleotides with DNA polymerase and proofreading exonuclease activities: implications for genotyping assays.

Authors: Daniel A Di Giusto; Garry C King
Journal: Nucleic Acids Res Date: 2004-02-18 Impact factor: 16.971

Enhanced discrimination of single nucleotide polymorphisms by artificial mismatch hybridization.

Review 1. Survey and summary: The applications of universal DNA base analogues.

2. Electronic detection of nucleic acids: a versatile platform for molecular diagnostics.

3. Optimization of probe length and the number of probes per gene for optimal microarray analysis of gene expression.

4. Strong positional preference in the interaction of LNA oligonucleotides with DNA polymerase and proofreading exonuclease activities: implications for genotyping assays.

5. No evidence for biased co-transmission of speciation islands in Anopheles gambiae.

6. SNP genotyping by DNA photoligation: application to SNP detection of genes from food crops.

7. Multiplex allele-specific amplification from whole blood for detecting multiple polymorphisms simultaneously.

8. Single-nucleotide polymorphism genotyping on optical thin-film biosensor chips.

9. Optimizing comparative genomic hybridization probes for genotyping and SNP detection in Plasmodium falciparum.

10. The effects of unnatural base pairs and mispairs on DNA duplex stability and solvation.