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Human Molecular Genetics Advance Access originally published online on July 6, 2004
Human Molecular Genetics 2004 13(17):1943-1949; doi:10.1093/hmg/ddh202
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Human Molecular Genetics, Vol. 13, No. 17 © Oxford University Press 2004; all rights reserved

Enhancing linkage analysis of complex disorders: an evaluation of high-density genotyping

The International Multiple Sclerosis Genetics Consortium*

Received March 19, 2004; Accepted June 22, 2004

To explore the potential value of recently developed high-density linkage mapping methods in the analysis of complex disease we have regenotyped five nuclear families first studied in the 1996 UK multiple sclerosis linkage genome screen, using Applied Biosystems high-density microsatellite linkage mapping set, the Illumina BeadArrayTM linkage mapping panel (version 3) and the Affymetrix GeneChip® Human Mapping 10K array. We found that genotyping success, information extraction and genotyping accuracy were improved with all systems. These improvements were particularly marked with the SNP-based methods (Illumina and Affymetrix), with little difference between these. The extent of additional information extracted is considerable, indicating that reanalysis of existing multiplex families using these newer systems would substantially increase power.

* To whom correspondence should be addressed: Stephen J. Sawcer. Tel: +44 1223217091; Fax: +44 1223336941; Email: sjs1016{at}mole.bio.cam.ac.uk. Contributing Consortium Members are listed in the Appendix.


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