This is important within the context of semantic searching, as it allows users to locate resources using different entry points, pathways, search terms and methods.
In BioCarta pathways, down-regulated gene set were enriched in the mTOR signalling pathway (p-value = 7·10−5) and the G1/S check point pathway (p-value = 5·10−3) (Table 2).
At later time point, pathways such as RNA degradation, cysteine and methionine metabolism, glycerolipid metabolism, tyrosine metabolism and nitrogen metabolism were enriched (Fig. 4b).
At later time point, pathways overrepresented among up-regulated genes include glycosylphosphatidylinositol (GPI -anchor biosynthesis, pentose phosphate pathway, GPI -anchorgluconeogenesis, starch and sucrose metabiosynthesisctose metabolism, N-glycan biosynthesis and steroid biosynthesis (Fig. 4a).
The approach is convincing as it shows how complex multiparameter data sets can be subjected to bioinformatic analyses and pin-point pathways that may later be targets for therapeutic intervention.
To gain insight into the different biological processes of swine influenza infection at the different time points, a pathway analysis was performed on DE genes.
In distinction to activating point mutations, pathway activation through PIK3CA gene dosage effects following low level genomic amplification have also been described [ 38].
We have previously used temperature-jump (T-jump) methods to demonstrate that the reaction landscape of lactate dehydrogenase branches at multiple points creating pathways with varied reactivity.
Thus each plot contains 1,141 data points (163 pathways times 7 phenotypes).
At each time-point, the pathway classes were more than the results present in the table.
