publication . Article . 2007

Comparison of haplotyping methods using families and unrelated individuals on simulated rheumatoid arthritis data

Li Xin; Li Jing;
Open Access English
  • Published: 01 Dec 2007 Journal: BMC Proceedings, volume 1, issue Suppl 1, pages S55-S55 (eissn: 1753-6561, Copyright policy)
  • Publisher: BioMed Central
Abstract
<p>Abstract</p> <p>In this report, we compared haplotyping approaches using families and unrelated individuals on the simulated rheumatoid arthritis (RA) data in Problem 3 from Genetic Analysis Workshop (GAW) 15. To investigate these two approaches, we picked two representative programs: PedPhase and fastPHASE, respectively, for each approach. PedPhase is a rule-based method focusing on the haplotyping constraints within each pedigree and solving them using integer linear programming. fastPHASE is a statistical method based on the clustering property of haplotypes in a population over short regions. It is believed that with family information, one can obtain mor...
Subjects
free text keywords: Proceedings, R, Science, Q, General Biochemistry, Genetics and Molecular Biology, General Medicine, Integer programming, Haplotype inference, Genetics, Cluster analysis, Haplotype, Genotyping, Bioinformatics, Genotype imputation, Population, education.field_of_study, education, Medicine, business.industry, business
Funded by
NIH| Multi-point and multi-locus analysis of genomic association data
Project
  • Funder: National Institutes of Health (NIH)
  • Project Code: 5R01LM008991-05
  • Funding stream: NATIONAL LIBRARY OF MEDICINE
,
NIH| HUMAN GENETIC ANALYSIS RESOURCE
Project
  • Funder: National Institutes of Health (NIH)
  • Project Code: 3P41RR003655-11S1
  • Funding stream: NATIONAL CENTER FOR RESEARCH RESOURCES

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