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The HapMap database (http://www.hapmap.org) was used to obtain linkage disequilibrium (LD) and genotype information from the Yoruba and CEPH populations.
Then scaffolds were aligned to the published genomes of S. suis to obtain linkage information for gap closure.
In addition, isolated population cohorts often provide the opportunity to recall subjects by genotype, access detailed genealogical records, obtain linkage to health records and follow the cohort longitudinally.
When large sets of known SNPs are available (e.g. when complete genome sequences are available), the mutant pool can be 'lightly' sequenced using short read next-generation sequencing to obtain linkage information.
In passing it should be said that it might be possible to obtain linkage within a single diet if linkage could be obtained across stations, perhaps by using a simulator or video station which was objectively marked and therefore of fixed difficulty either for all candidates or for large groups of candidates across examination centres.
It is not technically possible to adjust the results of a single diet of PACES because one cannot obtain linkage across the various subsets of examiners (and even if it were possible, the result would be less reliable than a correction based on as much data as possible on the behaviour of examiners, based on all examinations in which they had taken part).
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The association results for all 56 SNPs are shown in Supplementary Tables 1– 3. We obtained linkage disequilibrium (LD) patterns of all 19 tag SNPs in the gene RAC2 using Haploview (Fig. 1).
CH established the sawmill cohort, obtained linkages with health administrative data, and took part in drafting the manuscript.
We estimated thresholds for suggestive linkage through simulation according to a well established criteria of Lander and Krygluak 1995 [ 29] to obtain robust linkage data.
The 1,4-benzendimethanethiol surfactant was used with the aim to obtain a linkage between close gold nanoparticles in order to form networks.
Simulation was performed to obtain a linkage disequilibrium close to 0.33 (squared correlation of the alleles at two consecutive loci).
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