title: Oligonucleotide microarrays with stem-loop probes: enhancing the hybridization of nucleic acids for sensitive analysis.
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.
authors.affiliation: Nucleic Acids Research Laboratory, Institute of Genomics and Integrative Biology, Mall Road, Delhi University Campus, Delhi 110 007, India.
authors.forename: Shweta
authors.initials: S
authors.lastname: Mahajan
authors.forename: Archana
authors.initials: A
authors.lastname: Swami
authors.forename: Dalip
authors.initials: D
authors.lastname: Sethi
authors.forename: P
authors.initials: P
authors.lastname: Kumar
authors.forename: K C
authors.initials: KC
authors.lastname: Gupta
mesh_terms: D006863:Hydrogen-Ion Concentration; D015394:Molecular Structure; D009693:Nucleic Acid Hybridization / Q000379:methods*; D009696:Nucleic Acids / Q000032:analysis*; D020411:Oligonucleotide Array Sequence Analysis / Q000295:instrumentation / Q000379:methods*; D015345:Oligonucleotide Probes / Q000737:chemistry*; D009994:Osmolar Concentration; D012680:Sensitivity and Specificity; D013499:Surface Properties; D013696:Temperature
chemical_list: D009696:Nucleic Acids; D015345:Oligonucleotide Probes