Exact(3)
The goal of this study was to profile the allelic structure across the human CYP3A locus and investigate natural selection on that locus.
For example, if no polymorphism exists for a particular locus at speciation, then inferred genetic divergence times based on that locus will actually post-date speciation, as no information exists to trace the underlying genealogy.
If all alleles at a locus had the same fitness, then there is no constraint on that locus: all alleles are equally probable and the information content is null.
Similar(57)
Each file comprised three columns, namely locus ID (in this case the Ensembl ID of the opossum or human locus), the bp location of that locus in opossum or human, and the opossum or human chromosome on which that locus resides.
This approach is based on the principle that loci under selection or tightly linked to a locus under selection should exhibit outlying FST values (outliers) (Beaumont 2005).
These approaches hinge on the assumption that loci under selection will be recognizably different from neutral loci by having a distinct pattern of divergence among populations.
These species tree/gene tree reconciliation methods are based on the assumption that loci are "topologically homogeneous," that is, that all sites within a locus share the same topology.
Previous studies indicate that loci on chromosomes 7 and 11 affect the number of ribs in pigs [ 42- 44].
To validate the CNVs identified in the current study, we randomly selected 16 CNV loci and performed genomic qPCR using DNAs from study subjects who showed corresponding CNVs on that loci.
Firstly, 5000 permutation tests were performed on the hypothesis that one locus on a chromosome has an effect on the disease resistance (H1) versus the null hypothesis (H0) that the locus has no effect on the disease resistance.
Positive assortment increases the relatedness at the focal altruistic locus and, depending on the linkage disequilibrium between that locus and nearby G loci it also increases the relatedness at those loci.
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