Abstract:
:In the process of genetically mapping a complex disease, the question may arise whether a certain polymorphism is the only causal variant in a region. A number of methods can answer this question, but unfortunately these methods are optimal for bi-allelic loci only. We wanted to develop a method that is more suited for multi-allelic loci, such as microsatellite markers. We propose the Additional Disease Loci Test (ADLT): the alleles at an additional locus are permuted within the subsample of haplotypes that have identical alleles at the predisposing locus. The hypothesis being tested is, whether the predisposing locus is the sole factor predisposing to the trait that is in LD with the additional locus under study. We applied ADLT to simulated datasets and a published dataset on Type 1 Diabetes, genotyped for microsatellite markers in the HLA-region. The method showed the expected number of false-positive results in the absence of additional loci, but proved to be more powerful than existing methods in the presence of additional disease loci. ADLT was especially superior in datasets with less LD or with multiple predisposing alleles. We conclude that the ADLT can be useful in identifying additional disease loci.
journal_name
Ann Hum Genetjournal_title
Annals of human geneticsauthors
Spijker GT,Nolte IM,Jansen RC,Te Meerman GJdoi
10.1046/j.1529-8817.2004.00129.xsubject
Has Abstractpub_date
2005-01-01 00:00:00pages
90-101issue
Pt 1eissn
0003-4800issn
1469-1809pii
AHG129journal_volume
69pub_type
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