Genome-wide analysis of zygotic linkage disequilibrium and its components in crossbred cattle

BMC Genomic Data

Table 6 Means and ranges of generalized measures of squared correlations for digenic (gametic and composite), trigenic, quadrigenic and zygotic disequilibria averaged over all syntenic (intra-chromosome) SNP pairs and over all non-syntenic (inter-chromosome) SNP pairs across the composite beef genome

* Proportion of SNP pairs that X² exceeded 3.84, the 5% critical value of $χ_{(1)}^{2}$ .
^a The generalized measures of squared correlation for digenic, trigenic and quadrigenic disequilibria: $φ_{D_{AB}}^{2} = X_{D_{AB}}^{2} / n, φ_{Δ_{AB}}^{2} = X_{Δ_{AB}}^{2} / n, φ_{D_{ABB}}^{2} = X_{D_{ABB}}^{2} / n, φ_{D_{AAB}}^{2} = X_{D_{ABB}}^{2} / n, φ_{Δ_{AABB}}^{2} = X_{Δ_{AABB}}^{2} / n a n d φ_{ω_{AB}}^{2} = X_{ω_{AB}}^{2} / n$ , where n is the number of animals at individual SNP pairs. The Generalized measures of gametic and zygotic LD ( $φ_{GLD}^{2}$ and $φ_{ZLD}^{2}$ ) are based on an exact 2 × 2 contingency table and thus they are simply the squared correlations, i.e., $φ_{GLD}^{2} = r_{GLD}^{2}$ and $φ_{ZLD}^{2} = r_{ZLD}^{2}$ .

ISSN: 2730-6844