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Figure 11 | BMC Bioinformatics

Figure 11

From: A hierarchical Bayesian network approach for linkage disequilibrium modeling and data-dimensionality reduction prior to genome-wide association studies

Figure 11

LD plot versus matrix of MRCA levels. (a) LD plot (matrix of pairwise dependences between genetic markers - or linkage disequilibrium -) for the real data benchmark of Daly et al . (b) Triangular matrix of the MRCA levels learned from haplotype data. (c) Triangular matrix of the MRCA levels learned from genotype data. For any pair of SNPs, the MRCA is the most recent common ancestor. The dataset consists of 103 SNPs in the 5q 31 region; 129 individuals are described. This LD plot comes from [16]. As regards the two MRCA matrices, the color shade is all the darker as the MRCA level is high. N denotes the situation where the two SNPs considered do not belong to the same tree. a = 0.2, b = 2, card max = 20, t CAST = 0.95, t MI = quantile MI (0.95), t = 0.3 (for CFHLC parameter description, see Section Algorithm).

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BMC Bioinformatics

ISSN: 1471-2105

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