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ALLELE-LEVEL HLA TYPING USING HAPLOTYPE-SPECIFIC EXTRACTION AND SSO.
Cynthia Turino , Sarah Jones , Colleen Murphy , Johannes Dapprich Ph.D. , Nancy Murphy and Tine Thorbjornsen Ph.D. . West Chester PA, Inc., 19382, GenoVision ; Lawrenceville NJ, LLC, 08648, Generation Biotech and Oslo Norway, AS, N-0884, Qiagen .

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Sequence Specific Oligonucleotide (SSO) typing methods are widely used for HLA genotyping. Because the HLA alleles are highly polymorphic, probe-based SSO typing methods often yield results that have ambiguous allele combinations, sometimes not providing a definitive low resolution type without additional testing. These ambiguities are still present even when using large numbers of probes.
Using Haplotype-Specific Extraction (HSE) and an SSO method, the level of resolution can be greatly increased and ambiguous allele combinations eliminated because each allele is separately probed, making a clear determination of genotype. The HSE method uses a novel means of hybridization and magnetic beads to physically separate alleles based on a known heterozygote position, yielding a purified allele which can then be amplified and probed. The results combining HSE with SSO-typing often provide allelic level results.