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Table 2 Map and minor allele frequency information of each SNP randomly selected in the sprious pleiotropy simulation presented in Listing 1, as well as those selected to be additive quantitative trait nucleotides (QTNs)

From: simplePHENOTYPES: SIMulation of pleiotropic, linked and epistatic phenotypes

Replication Marker type Marker Allele Chromosome Position \(\hbox {cM}^*\) \(\hbox {MAF}^{**}\)
1 cause_of_LD ss196453961 A/G 4 68,182,921 NA 0.50
1 cause_of_LD ss196498075 A/G 10 87,305,008 NA 0.50
1 cause_of_LD ss196495963 G/A 10 52,568,307 NA 0.50
1 QTN_upstream ss196453979 G/A 4 68,369,212 NA 0.50
1 QTN_upstream ss196498083 A/C 10 87,799,475 NA 0.50
1 QTN_upstream ss196496034 G/A 10 54,432,827 NA 0.50
1 QTN_downstream ss196453929 C/A 4 67,678,951 NA 0.50
1 QTN_downstream ss196498065 A/G 10 87,189,608 NA 0.50
1 QTN_downstream ss196496813 C/A 10 49,693,682 NA 0.50
  1. A value of \(''1''\) under the column labeled “Replication” indicates that these were the markers selected for the first experiment (i.e., the first replicate trait) for this genetic architecture
  2. \(^*\) centimorgan (This example does not contain information on genetic linkage).
  3. \(^{**}\) Marker data filtered by minor allele frequency (MAF) \(> 0.40\)
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