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
LD Intra-chromosome Inter-chromosome
# of pairs Strength Power* # of pairs Strength Power*
Mean Range Mean Range Mean Range Mean Range
<a onClick="popup('http://www.biomedcentral.com/1471-2156/13/65/mathml/M49','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/65/mathml/M49">View MathML</a> 36131611 0.0105 0.0082-0.0126 0.4946 0.4432-0.5385 83686490 0.0044 0.0041-0.0047 0.3526 0.3338-0.3740
<a onClick="popup('http://www.biomedcentral.com/1471-2156/13/65/mathml/M50','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/65/mathml/M50">View MathML</a> 36131636 0.0097 0.0077-0.0117 0.4945 0.4449-0.5400 893686490 0.0044 0.0041-0.0047 0.3526 0.3338-0.3740
<a onClick="popup('http://www.biomedcentral.com/1471-2156/13/65/mathml/M51','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/65/mathml/M51">View MathML</a> 11158132 0.0035 0.0028-0.0045 0.1264 0.1043-0.1459 272879855 0.0033 0.0027-0.0042 0.1198 0.1025-0.1404
<a onClick="popup('http://www.biomedcentral.com/1471-2156/13/65/mathml/M52','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/65/mathml/M52">View MathML</a> 11224541 0.0034 0.0030-0.0041 0.1257 0.1098-0.1450 273790442 0.0034 0.0027-0.0042 0.1222 0.1030-0.1428
<a onClick="popup('http://www.biomedcentral.com/1471-2156/13/65/mathml/M53','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/65/mathml/M53">View MathML</a> 36128429 0.0013 0.0012-0.0016 0.0740 0.0643-0.0921 893685393 0.0010 0.0010-0.0011 0.0540 0.0513-0.0579
<a onClick="popup('http://www.biomedcentral.com/1471-2156/13/65/mathml/M54','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/65/mathml/M54">View MathML</a> 36071428 0.0029 0.0025-0.0034 0.1726 0.1577-0.1887 893012960 0.0016 0.0015-0.0016 0.1145 0.0105-0.1205

* Proportion of SNP pairs that X2 exceeded 3.84, the 5% critical value of <a onClick="popup('http://www.biomedcentral.com/1471-2156/13/65/mathml/M43','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/65/mathml/M43">View MathML</a>.

a The generalized measures of squared correlation for digenic, trigenic and quadrigenic disequilibria: <a onClick="popup('http://www.biomedcentral.com/1471-2156/13/65/mathml/M44','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/65/mathml/M44">View MathML</a>, where n is the number of animals at individual SNP pairs. The Generalized measures of gametic and zygotic LD (<a onClick="popup('http://www.biomedcentral.com/1471-2156/13/65/mathml/M45','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/65/mathml/M45">View MathML</a> and <a onClick="popup('http://www.biomedcentral.com/1471-2156/13/65/mathml/M46','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/65/mathml/M46">View MathML</a>) are based on an exact 2 × 2 contingency table and thus they are simply the squared correlations, i.e., <a onClick="popup('http://www.biomedcentral.com/1471-2156/13/65/mathml/M47','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/65/mathml/M47">View MathML</a> and <a onClick="popup('http://www.biomedcentral.com/1471-2156/13/65/mathml/M48','MathML',630,470);return false;" target="_blank" href="http://www.biomedcentral.com/1471-2156/13/65/mathml/M48">View MathML</a>.

Jiang et al.

Jiang et al. BMC Genetics 2012 13:65   doi:10.1186/1471-2156-13-65

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