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The PV affected biological pathways were evaluated by enrichment analysis of DEGs.
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The possible influence of drought stress on biological pathways was evaluated by enrichment analysis of DEGs.
Significance (p-values) in GeneGo of a biological pathway is evaluated based on the size of the intersection between user's dataset and set of genes/proteins corresponding to a network module/pathway in question.
Gene ontology, biological networks, and canonical pathways were evaluated with Ingenuity Pathway Analysis software (www.ingenuity.com) and the DAVID Annotation Tool website (http://david.abcc.ncifcrf.gov) [7], [8].
By using DAVID and PANTHER Classification System, differentially expressed genes were categorized according to their known or hypothetical biological function, and the enrichment for specific gene pathways was evaluated.
Biological pathways are important for understanding biological mechanisms.
However, the underlying biological pathways are only partially understood.
Again, no under-representation of any biological pathways was found.
Furthermore, the most enriched biological pathways are related to signaling.
The 49 biological pathways are given in Table 3.
Furthermore, some biological pathways are showing up for multiple traits.
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