Haplotype markers for diagnosing susceptibility to immunological conditions
First Claim
1. A method comprising:
- (a) providing the identity of the nucleotide for each of a set of single nucleotide polymorphisms (SNPs) in the major histocompatability complex (MHC) region in a population of individuals;
(b) providing the HLA type for said individuals; and
(c) identifying a SNP haplotype in said population that correlates with said HLA type, wherein said SNP haplotype comprises said SNPs in said MHC region.
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Abstract
The invention provides a method of identifying a SNP haplotype that correlates with an HLA type, MHC allele or susceptibility to a particular disease or condition including the steps of (a) providing the identity of the nucleotide for each of a set of single nucleotide polymorphism (SNPs) in the major histocompatability complex (MHC) region in a population of individuals; (b) providing the HLA type, MHC allele, or susceptibility to the particular disease or condition for the individuals; and (c) identifying a SNP haplotype in the population that correlates with the HLA type, MHC allele or susceptibility to the particular disease or condition, wherein the SNP haplotype includes the SNPs in the MHC region. The invention further provides a method for predicting an HLA type, MHC allele or susceptibility to a particular disease or condition of an individual including the steps of (a) providing the identity of a plurality of SNPs in one or more nucleic acids from the individual that correlate with an HLA type, MHC allele or susceptibility to a particular disease or condition; and (b) predicting the HLA type, MHC genotype or susceptibility to a particular disease or condition for the individual based on a SNP haplotype comprising the plurality of SNPs. The invention also provides SNPs and oligonucleotide probes that are useful for identifying haplotypes associated with a particular disease or condition or with the presence of particular protein variants involved in immunological recognition. The SNPs and probes are also useful for predicting HLA-type, HLA genotype or susceptibility to a particular disease or condition.
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Citations
48 Claims
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1. A method comprising:
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(a) providing the identity of the nucleotide for each of a set of single nucleotide polymorphisms (SNPs) in the major histocompatability complex (MHC) region in a population of individuals;
(b) providing the HLA type for said individuals; and
(c) identifying a SNP haplotype in said population that correlates with said HLA type, wherein said SNP haplotype comprises said SNPs in said MHC region. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12)
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13. A method for predicting the HLA type of an individual, said method comprising:
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(a) providing the identity of the nucleotide for each of a set of SNPs in one or more nucleic acids from said individual that correlate with an HLA type; and
(b) predicting the HLA type of said individual based on a SNP haplotype comprising said set of SNPs. - View Dependent Claims (14, 15, 16, 17, 18)
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19. A method of identifying an SNP haplotype that correlates with an allelic variant of an MHC gene, said method comprising:
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(a) providing the identity of the nucleotide for each of a set of single nucleotide polymorphisms (SNPs) in the major histocompatability complex (MHC) region in a population of individuals;
(b) providing the presence or absence of said allelic variant of an MHC gene in said individuals; and
(c) identifying a SNP haplotype in said population that correlates with said allelic variant of an MHC gene, wherein said SNP haplotype comprises said set of SNPs. - View Dependent Claims (20, 21, 22, 23, 24, 25, 26)
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27. A method for determining the presence or absence of an allelic variant of an MHC gene in an individual, said method comprising:
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(a) providing the identity of the nucleotide for each of a set of SNPs in one or more nucleic acids from said individual that correlate with said allelic variant of an MHC gene; and
(b) determining presence or absence of an allelic variant of an MHC gene in said individual based on a SNP haplotype comprising said set of SNPs. - View Dependent Claims (28, 29, 30, 31, 32)
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33. A method for identifying a SNP haplotype that correlates with susceptibility to a disease or condition, said method comprising:
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(a) providing the identity of the nucleotide for each of a set of single nucleotide polymorphism (SNPs) in the major histocompatability complex (MHC) region in a population of individuals;
(b) providing susceptibility to said disease or condition for said individuals; and
(c) identifying a SNP haplotype in said population that correlates with said susceptibility to said disease, wherein said SNP haplotype comprises said SNPs in the MHC region. - View Dependent Claims (34, 35, 36, 37, 38, 39, 40, 41, 48)
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42. A method for determining the susceptibility of an individual to a disease or condition, said method comprising:
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(a) providing the identity of a set of SNPs in one or more nucleic acids from said individual that correlate with susceptibility to said disease or condition; and
(b) determining said susceptibility of said individual to said disease or condition based on a SNP haplotype comprising said set of SNPs. - View Dependent Claims (43, 44, 45, 46, 47)
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Specification