publication . Article . 2009

Gene hunting of the Genetic Analysis Workshop 16 rheumatoid arthritis data using rough set theory

Aporntewan Chatchawit; Ballard David H; Lee Ji; Lee Joon; Wu Zheyang; Zhao Hongyu;
Open Access English
  • Published: 01 Dec 2009 Journal: BMC Proceedings, volume 3, issue Suppl 7, pages S126-S126 (eissn: 1753-6561, Copyright policy)
  • Publisher: BioMed Central
<p>Abstract</p> <p>We propose to use the rough set theory to identify genes affecting rheumatoid arthritis risk from the data collected by the North American Rheumatoid Arthritis Consortium. For each gene, we employ generalized dynamic reducts in the rough set theory to select a subset of single-nucleotide polymorphisms (SNPs) to represent the genetic information from this gene. We then group the study subjects into different clusters based on their genotype similarity at the selected markers. Statistical association between disease status and cluster membership is then studied to identify genes associated with rheumatoid arthritis. Based on our proposed approac...
free text keywords: Proceedings, R, Science, Q, General Biochemistry, Genetics and Molecular Biology, General Medicine, Medicine, business.industry, business, Genetic predisposition, Genetic analysis, Gene, Rheumatoid factor, PTPN22, Single-nucleotide polymorphism, Rheumatoid arthritis, medicine.disease, Computational biology, Genotype, Bioinformatics
Funded by
NIH| Biomedical Informatics and Data Science Training at Yale
  • Funder: National Institutes of Health (NIH)
  • Project Code: 5T15LM007056-32
NIH| Genetic Analysis of Common Diseases: An Evaluation
  • Funder: National Institutes of Health (NIH)
  • Project Code: 5R01GM031575-22
  • Funder: Wellcome Trust (WT)
NIH| Thai-US Drug Dependence Genetics Research Training Grant
  • Funder: National Institutes of Health (NIH)
  • Project Code: 5D43TW006166-03
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