Patent ID: 7972791
Filing Date: 2011-07-05
Classification: C12Q

Abstract:
1. A method for determining cis linkage of alleles to an HLA locus haplotype, comprising: (a) providing a solid surface comprising a covalently bound plurality of oligonucleotide probes having a nucleotide sequence complementary to said HLA locus haplotype; (b) contacting the oligonucleotide probes with a sample of genomic DNA under conditions conducive to specific hybridization of the genomic DNA to the oligonucleotide probes to form a genomic DNA/oligonucleotide complex; (c) removing excess genomic DNA; (d) denaturing the genomic DNA/oligonucleotide complex; (e) separating the genomic DNA by haplotype; (f) amplifying selectively a region of interest in the haplotype separated genomic DNA using asymmetric PCR and labeled primers to form a labeled, single stranded DNA sample; (g) contacting the labeled, single stranded DNA sample with a microarray comprising a plurality of oligonucleotide probes under conditions conducive to hybridization; and (i) detecting a hybridization pattern for the DNA sample and assigning an allele type with cis linkage to the HLA locus haplotype of the genomic DNA sample.