Kits for multiplexed nucleic acid analysis by capture of single-stranded DNA produced from double-stranded target fragments
First Claim
1. A method of detecting particular nucleotide sequences in a double-stranded oligonucleotide sample, comprising:
- cleaving the double-stranded oligonucleotide at locations which are not aligned between the oligonucleotide strands, to thereby generate sense and anti-sense fragments which are not fully complementary;
placing the fragments with a set of single-stranded oligonucleotides under annealing conditions, wherein single-stranded oligonucleotides in the set are complementary to the fragments or to subsequences of the fragments; and
detecting hybridization between single-stranded oligonucleotides and the fragments.
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Abstract
A method of fragmentation of double stranded DNA is disclosed for use in nucleic acid analysis, notably in the multiplexed analysis of polymorphisms and mutations. The method produces a multiplicity of labeled sense and anti-sense fragments which are not complementary, and thus do not significantly re-anneal under conditions suitable for hybridization analysis (or capture-mediated elongation analysis) of the polymorphisms and/or mutations. The fragments display a desired or predicted length distribution. Cleavage sites can be selected such that the fragments are short, yet long enough to allow discrimination among fragments in an assay, and as a matter of statistical probability, such that the majority of fragments contain at least one labeled nucleotide to facilitate detection.
544 Citations
14 Claims
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1. A method of detecting particular nucleotide sequences in a double-stranded oligonucleotide sample, comprising:
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cleaving the double-stranded oligonucleotide at locations which are not aligned between the oligonucleotide strands, to thereby generate sense and anti-sense fragments which are not fully complementary; placing the fragments with a set of single-stranded oligonucleotides under annealing conditions, wherein single-stranded oligonucleotides in the set are complementary to the fragments or to subsequences of the fragments; and detecting hybridization between single-stranded oligonucleotides and the fragments. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14)
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Specification