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Shorter genomes also possess a greater proportion of overlapping genes of shorter length than their non-overlapping orthologues.
Similar to what is observed in Arabidopsis thaliana, vertebrates have differing sets of overlapping genes (i.e. non-conserved) across different species, subsequently leading to high proportion of overlapping pairs of genes containing an LSG [ 69].
Two sets of genes were randomly generated from all genes in the whole Drosophila genome and the proportion of overlapping genes between the two gene sets was calculated.
By 48 hours, the proportion of overlapping DEGs had risen (n = 52; 21% of all DEGs), while the number of location-specific DEGs remained similar to that observed at 24 hours (n = 113 in Mexico; n = 81 in Florida).
Distance between motifs was based on the proportion of overlapping motif matches along all non-redundant promoter sequences.
Again, gene list stability was quantified by the proportion of overlapping genes in the top-5% gene list.
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Similar results were seen with less stringent criteria (fold-change ±1.2), which consequently led to larger numbers of probes, but similar proportions of overlapping probes were reported (data not shown).
Both Dichaete and SoxN show high overlap with CRMs from all three sources, with a high proportion of CRMs overlapping both Dichaete and SoxN binding intervals (Table 2).
We tested the non-cancer set against the MET set, comparing the proportion of promoters overlapping non-cancer peaks (277) out of all non-cancer peaks (75,474), versus the proportion of promoters overlapping MET peaks (503) out of all MET peaks (120,679).
Subfigure (e) counts the proportion of overlap in the ranking between BVA and betweenness for an increasing number of nodes.
Subplot (e) shows the proportion of overlap between the top ranking nodes from BVA and betweenness for different sizes of the ranking size.
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