publication . Article . 2009

Genome-wide association analysis of rheumatoid arthritis data via haplotype sharing

Allen Andrew S; Satten Glen A;
Open Access
  • Published: 01 Dec 2009 Journal: BMC Proceedings, volume 3 (eissn: 1753-6561, Copyright policy)
  • Publisher: Springer Nature
Abstract
<p>Abstract</p> <p>We present computationally simple association tests based on haplotype sharing that can be easily applied to genome-wide association studies, while allowing use of fast (but not likelihood-based) haplotyping algorithms, and properly accounting for the uncertainty introduced by using inferred haplotypes. We also give haplotype sharing analyses that adjust for population stratification. We apply our methods to a genome-wide association study of rheumatoid arthritis available as Problem 1 of Genetic Analysis Workshop 16. In addition to the HLA region on chromosome 6, we find genome-wide significant signals at 7q33 and 13q31.3. These regions conta...
Subjects
free text keywords: General Biochemistry, Genetics and Molecular Biology, General Medicine, Medicine, business.industry, business, Population stratification, Genetic association, Human leukocyte antigen, Haplotype, Polymorphism (computer science), Rheumatoid arthritis, medicine.disease, Genetic analysis, Bioinformatics, Genetics, Genome-Wide Association Analysis, Proceedings, R, Science, Q
Funded by
NIH| Advanced Haplotype Analyses in Coronary Artery Disease
Project
  • Funder: National Institutes of Health (NIH)
  • Project Code: 1K25HL077663-01
  • Funding stream: NATIONAL HEART, LUNG, AND BLOOD INSTITUTE
,
NIH| Genetic Analysis of Common Diseases: An Evaluation
Project
  • Funder: National Institutes of Health (NIH)
  • Project Code: 5R01GM031575-22
  • Funding stream: NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES
,
NIH| Robust Methods for the Efficient Analysis and Integration of DNA Sequence Data
Project
  • Funder: National Institutes of Health (NIH)
  • Project Code: 1R01MH084680-01
  • Funding stream: NATIONAL INSTITUTE OF MENTAL HEALTH

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