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2008 | 55 | 4 | 713-720
Article title

Effects of mismatches and insertions on discrimination accuracy of nucleic acid probes

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Effective discrimination of non-complementary nucleotides is an important factor to ensure the accuracy of hybridization-based nucleic acid analyses. The current study investigates the effects of the chemical nature, the positions, the numbers, and the cooperative behavior of mismatches as well as insertions on 20-mer and 30-mer duplexes. We observed the hybridization stability trend affected by mismatches: G:T ≈ G:G > G:A > A:A ≈ T:T > A:C ≈ T:C > C:C. The experimental data show that mismatches at the center of the oligonucleotide probes have a more profound destabilizing effect on the hybridization stability than those at either ends. Insertions also demonstrate a similar destabilizing effect as mismatches. These results provide useful information for designing DNA microarray nucleotide probes and for improving the discrimination accuracy of hybridization-based detections.

Physical description
  • Department of Biochemistry and Molecular Biology, China Medical University, Shenyang, China
  • Department of Biochemistry and Molecular Biology, China Medical University, Shenyang, China
  • Department of Biochemistry and Molecular Biology, China Medical University, Shenyang, China
  • Department of Biochemistry and Molecular Biology, China Medical University, Shenyang, China
  • Department of Biochemistry and Molecular Biology, China Medical University, Shenyang, China
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