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It indicates that these four pathways have high percentages of DE genes.
For mmu04060, the analysis of lung adenocarcinoma tissue specimens have demonstrated that the genes involved in these biological pathways have high rates of over-expression [ 57].
Whereas some oncogenic pathways have high correlations to breast cancer subtype (RAS, CTNNB1, p53, HER1), others have high variability of activity within a specific subtype (MYC, E2F3, SRC), reflecting biology independent of common clinical factors.
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The sRNA pathways have higher activity in female than in male cones, and the miRNA pathways are the main sRNA pathways in P. tabuliformis.
Edge weights w e) depend on our confidence that a specific interaction exists (Supplementary Table S1) so that more confident pathways have higher weights (Gitter et al., 2011).
The expression profiles of these genes suggested that the sRNA pathways have higher activities in female than in male reproductive structures.
In this study, we find that genes involved in osteoblast development, hair follicles development, pigmentation, spermatid, nervous system and organ development, and some metabolic pathways have higher levels of population differentiation.
Proportionally, the male cones had relatively high levels of 24-nt sRNAs (Fig. 5), but AGO4, which plays a key role in the action of 24-nt sRNAs, was expressed at a very low level in male cones (Fig. 4a), indicating that both miRNA and siRNA pathways have higher activities in female than male cones.
However, an interesting observation was that in each pathway pair identified by our method, at least one of the two pathways had high functional homogeneity.
ErbB, MAPK, and WNT signaling pathways had high scores and were likely to be controlled by the altered miRNAs in ARDS (Table 9).
To say a gene-pair involved in cross-talk between two particular signaling pathways has high potential of being involved in acquired drug-resistance, our research hypothesis was it should have high probability of appearing in the resistant network and low probability in the parental network.
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