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These methods consist essentially of taking a sample of genes and finding out how many are variable and how variable each one is.
Generally, the length of exon can be approximated from a limited sample of genes.
To detect a possible donor taxon, we first analyzed the phylogenetic trees of a random sample of genes from Set SAO.
This implies the collective mode corresponds to a global, a-specific adjustment of the expression network that can be appreciated even in the case of a sufficiently populated random sample of genes.
The scoring procedure is based on a global survey of researchers, who assigned characterization scores from 1 (poor) to 10 (extensive) for a sample of genes based on major online resources.
Loci in this candidate gene dataset were compared with loci from a control dataset chosen to represent an unbiased sample of genes not hypothesised to be under positive selection.
We asked 52 scientists worldwide to assess a sample of genes and assign a score within a 10-point scale, with 1 indicating a completely uncharacterized gene and 10 a gene that is fully described.
We have validated the integrity of this data through qRT-PCR and demonstrated its concordance with a sample of genes identified in a previous ex vivo analysis (Masino et al., 2004).
Both of these tests indicate that our selection-candidates are no more likely to associate with teosinte trait variation than a sample of genes chosen at random from the genome.
To evaluate indices for large scale identification of genes under balancing selection, analysis was performed on a prospective sample of genes encoding surface-accessible proteins in a single parasite stage.
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The BSP derives from a coalescent process used to estimate the effective number of infections through time from a sample of gene sequences.
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