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The advantages of dense marker sets for linkage analysis with very large families


Thomson, Russell and Quinn, SJ and McKay, JD and Silver, J and Bahlo, M and Fitzgerald, LM and Foote, SJ and Dickinson, JL and Stankovich, J, The advantages of dense marker sets for linkage analysis with very large families, Human Genetics, 121, (3-4) pp. 459-468. ISSN 0340-6717 (2007) [Refereed Article]

DOI: doi:10.1007/s00439-007-0323-5


Dense sets of hundreds of thousands of markers have been developed for genome-wide association studies. These marker sets are also beneficial for linkage analysis of large, deep pedigrees containing distantly related cases. It is impossible to analyse jointly all genotypes in large pedigrees using the Lander-Green Algorithm, however, as marker density increases it becomes less crucial to analyse all individuals' genotypes simultaneously. In this report, an approximate multipoint non-parametric technique is described, where large pedigrees are split into many small pedigrees, each containing just two cases. This technique is demonstrated, using phased data from the International Hapmap Project to simulate sets of 10,000, 50,000 and 250,000 markers, showing that it becomes increasingly accurate as more markers are genotyped. This method allows routine linkage analysis of large families with dense marker sets and represents a more easily applied alternative to Monte Carlo Markov Chain methods. © Springer-Verlag 2007.

Item Details

Item Type:Refereed Article
Research Division:Biomedical and Clinical Sciences
Research Group:Clinical sciences
Research Field:Medical genetics (excl. cancer genetics)
Objective Division:Health
Objective Group:Public health (excl. specific population health)
Objective Field:Disease distribution and transmission (incl. surveillance and response)
UTAS Author:Thomson, Russell (Dr Russell Thomson)
UTAS Author:Quinn, SJ (Dr Stephen Quinn)
UTAS Author:McKay, JD (Dr James McKay)
UTAS Author:Fitzgerald, LM (Dr Liesel Fitzgerald)
UTAS Author:Foote, SJ (Professor Simon Foote)
UTAS Author:Dickinson, JL (Professor Joanne Dickinson)
UTAS Author:Stankovich, J (Dr Jim Stankovich)
ID Code:48751
Year Published:2007
Web of Science® Times Cited:2
Deposited By:Menzies Institute for Medical Research
Deposited On:2007-08-01
Last Modified:2010-04-30

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