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Cross-comparison of these categories resulted in one commonly enriched term, "oxidoreductase activity".
Oxidoreductase activity was the only commonly enriched term related to the DEGs in four pairwise comparisons between the wild and domestic silkworms (Additional file 7: Table S5).
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Commonly enriched GO terms among mRNAs associated with selected proteins were retrieved with the GO Term Finder that uses a hypergeometric distribution with Multiple Hypothesis Correction to calculate p-values (SGD; www.yeastgenome.org).org
Other commonly enriched GO terms among water deficit responsive genes in the present study were "heme binding", its ancestor term "tetrapyrrole binding" and the functionally related category "iron ion binding".
For each category, between three and 34 GO terms were enriched, and except for in panicle and root, there were no commonly enriched GO terms between japonica higher jiDE genes and indica higher jiDE genes in the other tissues (Additional file 17: Table S9 and Additional file 18: Table S10).
There were no commonly enriched GO terms between global and changed-tissues DE genes.
Their interactions were considered potentially important because they belong to one or multiple commonly enriched GO terms.
"Response to high light intensity", "hydrolase activity, hydrolyzing O-glycosyl compounds", "catalytic activity", and "carbohydrate metabolic process" were commonly enriched GO terms in root changed-tissues jiDE genes of the NZ combination (Additional file 18: Table S10).
Oxidation-reduction is a GO term commonly enriched in the down-regulated set of genes for most flies.
Some GO terms were commonly enriched in these networks, such as gene expression (GO: 0010467), translation (GO: 0006412), and photosynthesis (GO: 0015979).
GO term analysis revealed no significantly enriched terms.
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