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Combining linkage data sets for meta-analysis and mega-analysis: the GAW15 rheumatoid arthritis data set [Conference Proceedings]

Segurado, Ricardo, Hamshere, Marian Lindsay, Glaser, Beate, Nikolov, Ivan, Escott-Price, Valentina and Holmans, Peter Alan 2007. Combining linkage data sets for meta-analysis and mega-analysis: the GAW15 rheumatoid arthritis data set [Conference Proceedings]. BMC Proceedings 1 (S1) , S104-S104.

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Abstract

We have used the genome-wide marker genotypes from Genetic Analysis Workshop 15 Problem 2 to explore joint evidence for genetic linkage to rheumatoid arthritis across several samples. The data consisted of four high-density genome scans on samples selected for rheumatoid arthritis. We cleaned the data, removed intermarker linkage disequilibrium, and assembled the samples onto a common genetic map using genome sequence positions as a reference for map interpolation. The individual studies were combined first at the genotype level (mega-analysis) prior to a multipoint linkage analysis on the combined sample, and second using the genome scan meta-analysis method after linkage analysis of each sample. The two approaches were compared, and give strong support to the HLA locus on chromosome 6 as a susceptibility locus. Other regions of interest include loci on chromosomes 11, 2, and 12

Item Type: Article
Date Type: Publication
Status: Published
Schools: MRC Centre for Neuropsychiatric Genetics and Genomics (CNGG)
Medicine
Subjects: R Medicine > R Medicine (General)
Publisher: BioMed Central
ISSN: 1753-6561
Last Modified: 02 May 2019 12:53
URI: http://orca.cf.ac.uk/id/eprint/82811

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