Primer-directed chromosome painting
First Claim
1. An oligonucleotide composition comprising:
- a mixture of at least 2 sets of oligonucleotides,wherein each of said sets of oligonucleotides comprises at least 10 different oligonucleotides of the following formula;
X1—
V—
X2, wherein;
Xi and X2 provide binding sites for a pair of PCR primers;
V is a variable region that has a variable nucleotide sequence that is complementary to one or more regions of a mammalian genome;
the nucleotide sequence of X1 is the same for each oligonucleotide of a set and different for oligonucleotides of different sets;
the nucleotide sequence of X2 is the same for each oligonucleotide of a set and different for oligonucleotides of different sets; and
the variable regions of each set are complementary to a plurality of different regions of said mammalian genome.
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Abstract
An oligonucleotide composition is provided. The subject composition comprises: a mixture of at least 10 of sets of oligonucleotides, wherein each of the sets of oligonucleotides comprises at least 100 different oligonucleotides of the following formula: X1—V—X2, wherein: X1 and X2 provide binding sites for a pair of PCR primers and V is a variable region that has a variable nucleotide sequence that is complementary to one or more discrete regions of a mammalian genome; the nucleotide sequences of X1 and X2 are the same for each oligonucleotide of a set and different for oligonucleotides of different sets; and the variable regions of each set are complementary to different discrete regions of said mammalian genome. Methods of using the composition and kits containing the composition are also provided.
39 Citations
19 Claims
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1. An oligonucleotide composition comprising:
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a mixture of at least 2 sets of oligonucleotides, wherein each of said sets of oligonucleotides comprises at least 10 different oligonucleotides of the following formula;
X1—
V—
X2, wherein;Xi and X2 provide binding sites for a pair of PCR primers; V is a variable region that has a variable nucleotide sequence that is complementary to one or more regions of a mammalian genome; the nucleotide sequence of X1 is the same for each oligonucleotide of a set and different for oligonucleotides of different sets; the nucleotide sequence of X2 is the same for each oligonucleotide of a set and different for oligonucleotides of different sets; and the variable regions of each set are complementary to a plurality of different regions of said mammalian genome. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10)
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11. A labeling method comprising:
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a) contacting a composition comprising a mixture of at least 2 sets of oligonucleotides, wherein each of said sets of oligonucleotides comprises at least 10 different oligonucleotides of the following formula;
X1—
V—
X2, wherein;X1 and X2 provide binding sites for a pair of PCR primers; V is a variable region that has a variable nucleotide sequence that is complementary to one or more regions of a mammalian genome; the nucleotide sequence of X1 is the same for each oligonucleotide of a set and different for oligonucleotides of different sets; the nucleotide sequence of X2 is the same for each oligonucleotide of a set and different for oligonucleotides of different sets; and the variable regions of each set are complementary to a plurality of different regions of said mammalian genome; with a first pair of PCR primers under PCR conditions to provide a first set of amplification products, wherein said amplification products comprise the variable regions of a first set of oligonucleotides; and b) labeling said amplification products with a first label to provide first labeled amplification products. - View Dependent Claims (12, 13, 14, 15, 16, 17)
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18. A kit comprising
a) an oligonucleotide composition comprising a mixture of at least 2 sets of oligonucleotides, wherein each of said sets of oligonucleotides comprises at least 10 different oligonucleotides of the following formula: -
X1—
V—
X2, wherein;X1 and X2 provide binding sites for pair of PCR primers; V is a variable region that has a variable nucleotide sequence that is complementary to one or more regions of a mammalian genome; the nucleotide sequence of X1 is the same for each oligonucleotide of a set and different for oligonucleotides of different sets; the nucleotide sequence of X2 is the same for each oligonucleotide of a set and different for oligonucleotides of different sets; and the variable regions of each set are complementary to a plurality of different regions of said mammalian genome; and b) a plurality of pairs of PCR primers, wherein each pair of PCR primers amplifies the variable region from a different set of oligonucleotides to produce amplification products. - View Dependent Claims (19)
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Specification