Method for label-free detection of hybridized DNA targets
First Claim
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1. A method for detecting or identifying genetic polymorphisms, said method comprising:
- providing (1) a set of first probes, each (i) having a nucleic acid sequence that is attached to a solid support, and (ii) differing from each other in at least one base location, and (2) a set of second probes, each having a nucleic acid sequence that incorporates at least one artificial mismatch site relative to a first probe, such that said first probe and second probe are bound to each other in a duplex;
providing each first probe with an emitter element, and each second probe with a quencher element;
hybridizing an unlabeled sample nucleic acid target to said duplex of first and second probes;
displacing said second probe from said duplex with said sample nucleic acid target, wherein said emitter element increases in emission intensity with such displacement.
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Abstract
A method for the detection and analysis of genetic polymorphisms using arrays that do not require labeling of a target nucleic acid sequence. Hybridization of a perfectly complementary nucleic acid target sequence to an oligonucleotide probe sequence results in a displacement and complete removal of a hybridized probe sequence from the same oligonucleotide probe sequence by means of a thermo-kinetic reaction. The removal of the hybridized probe sequence, having a quencher element, increases the intensity of emission by an emitter element on the oligonucleotide probe sequence.
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Citations
36 Claims
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1. A method for detecting or identifying genetic polymorphisms, said method comprising:
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providing (1) a set of first probes, each (i) having a nucleic acid sequence that is attached to a solid support, and (ii) differing from each other in at least one base location, and (2) a set of second probes, each having a nucleic acid sequence that incorporates at least one artificial mismatch site relative to a first probe, such that said first probe and second probe are bound to each other in a duplex;
providing each first probe with an emitter element, and each second probe with a quencher element;
hybridizing an unlabeled sample nucleic acid target to said duplex of first and second probes;
displacing said second probe from said duplex with said sample nucleic acid target, wherein said emitter element increases in emission intensity with such displacement. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16)
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17. A method for detecting genetic polymorphisms, said method comprising:
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providing a plurality of DNA duplexes, each having a first nucleic acid sequence that is immobilized to a solid support and labeled with a fluorophore, and an attached second nucleic acid sequence that incorporates at least one mismatch site and is labeled with a fluorescence quencher;
exposing said first nucleic acid sequence to an unlabeled sample DNA sequence that is perfectly complementary to said first nucleic acid sequence;
dislodging said second nucleic acid sequence from said first nucleic acid sequence, thereby removing said quencher. - View Dependent Claims (18, 19, 20)
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21. A method for detecting genetic polymorphisms, said method comprising:
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immobilizing on a solid support a plurality of first oligonucleotide probes, each having a first nucleic acid sequence to which an emitting element is attached;
providing (1) a second probe having a second nucleic acid sequence, and (2) an unlabeled sample nucleic acid target;
hybridizing under competitive conditions said second probe and said sample nucleic acid target to said first oligonucleotide, wherein said second probe binds to said first oligonucleotide probe and said quenching element reduces an emission from said emitting element when said sample nucleic acid target is not complementary.- View Dependent Claims (22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36)
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Specification