1. Oligonucleotide microarrays with stem–loop probes: Enhancing the hybridization of nucleic acids for sensitive analysis
- Author
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Kailash C. Gupta, Archana Swami, Dalip Sethi, Pramod Kumar, and Mahajan Sk
- Subjects
Surface Properties ,Clinical Biochemistry ,Pharmaceutical Science ,Sensitivity and Specificity ,Biochemistry ,Nucleic acid thermodynamics ,chemistry.chemical_compound ,Molecular beacon ,Nucleic Acids ,Drug Discovery ,Molecular Biology ,Protein secondary structure ,Oligonucleotide Array Sequence Analysis ,Molecular Structure ,Osmolar Concentration ,Organic Chemistry ,Temperature ,Nucleic Acid Hybridization ,Hydrogen-Ion Concentration ,Stem-loop ,Fluorescence ,Molecular biology ,chemistry ,Nucleic acid ,Biophysics ,Molecular Medicine ,DNA microarray ,Oligonucleotide Probes ,DNA - Abstract
We have demonstrated that the dynamics of nucleic acid hybridization in microarrays depend on the physical structure of immobilized probes. We have immobilized oligonucleotide-3'-phosphates with and without stem-loop structure on epoxylated glass surface, followed by hybridization under different conditions, viz., hybridization buffer, pH condition, temperature and ionic strength. In a comparative study, we have established that array constructed using probes with stem-loop structure displayed approximately 2.2 times higher hybridization signals than the probes without it. The stem-loop DNA array format is simple and flexible in design and thus potentially useful in various DNA diagnostic tests.
- Published
- 2008
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