Dna chip based genetic typing
First Claim
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1. A method for typing a target gene, which method comprises:
- a) isolating a target cell comprising a target gene from a suitable sample and obtaining a preparation comprising a target nucleotide sequence that is at least a part of said target gene from said isolated target cell and, optionally another nucleotide sequence not related to said target gene;
b) providing a chip comprising a support suitable for use in nucleic acid hybridization having immobilized thereon an oligonucleotide probe complementary to said target nucleotide sequence and at least one of the following oligonucleotide control probes;
a positive control probe, a negative control probe, a hybridization control probe and an immobilization control probe; and
c) hybridizing said preparation obtained in step a) to said chip provided in step b) and assessing hybridization between said target nucleotide sequence and/or said another nucleotide sequence and said probes comprised on said chip to determine the type of said target gene.
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Abstract
This invention relates generally to the field of nucleic acid analysis. In particular, the invention provides a method for typing a target gene, using, inter alia, a chip comprising a support suitable for use in nucleic acid hybridization having immobilized thereon an oligonucleotide probe complementary to said target nucleotide sequence and at least one of the following oligonucleotide control probes: a positive control probe, a negative control probe, a hybridization control probe and an immobilization control probe. Oligonucleotide probes or probes arrays for typing a HLA target gene are also provided.
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Citations
76 Claims
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1. A method for typing a target gene, which method comprises:
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a) isolating a target cell comprising a target gene from a suitable sample and obtaining a preparation comprising a target nucleotide sequence that is at least a part of said target gene from said isolated target cell and, optionally another nucleotide sequence not related to said target gene;
b) providing a chip comprising a support suitable for use in nucleic acid hybridization having immobilized thereon an oligonucleotide probe complementary to said target nucleotide sequence and at least one of the following oligonucleotide control probes;
a positive control probe, a negative control probe, a hybridization control probe and an immobilization control probe; and
c) hybridizing said preparation obtained in step a) to said chip provided in step b) and assessing hybridization between said target nucleotide sequence and/or said another nucleotide sequence and said probes comprised on said chip to determine the type of said target gene. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64)
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65. An oligonucleotide probe for typing a HLA target gene comprising a nucleotide sequence that:
a) hybridizes, under high stringency, with a target HLA nucleotide sequence, or a complementary strand thereof, that is set forth in Table 1;
or b) has at least 90% identity to a target HLA nucleotide sequence comprising a nucleotide sequence, or a complementary strand thereof, that is set forth in Table 1.- View Dependent Claims (66, 67, 68, 69)
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70. An array of oligonucleotide probes immobilized on a support for typing a HLA target gene, which array comprises a support suitable for use in nucleic acid hybridization having immobilized thereon a plurality of oligonucleotide probes, at least one of said probes comprising a nucleotide sequence that:
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a) hybridizes, under high stringency, with a target HLA nucleotide sequence, or a complementary strand thereof, that is set forth in Table 1;
orb) has at least 90% identity to a target HLA nucleotide sequence comprising a nucleotide sequence, or a complementary strand thereof, that is set forth in Table 1. - View Dependent Claims (71, 72, 73, 74, 75, 76)
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Specification