Most pathways showed the same order of diversity across the four subtypes as that observed globally, suggesting that transcriptional diversity is a global characteristic of the tumors and not primarily driven by heterogeneity in a few biological processes.
Other than 3 pathway concepts (Methionine Degradation I, Nucleotide Metabolism, and Vitamin C in the Brain pathways), genes in most pathway concepts show significantly strong interaction.
The top most significant pathway showed that 17 differentially expressed genes in U87 cells were related to the DNA damage response involving members of the BRCA family.
The micronutrients most relevant to the pathways shown in Figure 1 include the fat-soluble carotenoids and vitamin E, water-soluble vitamin C, (Mayne 2003) and methyl nutrients including the B-vitamins pyridoxine (B6), cyanocobalamin (B12), and folate.
Most of genes in the pathways showed a co-expression pattern, some of which were members of conserved co-expression clusters (Tables 1 and S1, Figure S2).
Moreover, we notice that most of the top-ranking pathways (shown as dark red points on supplementary fig. S10, Supplementary Material online) have a high α value associated with a low DN/DS and an even lower PN/PS.
The analysis of the reaction pathways shows that kinetically most favorable pathway involves the successive reaction between protonated 2,2,2-trifluoroacetophenone and neutral oligomers.
In contrast to the prevalent gene downregulation in glycolysis, PPP and PCP pathways in A. bisporus, most of the genes in these pathways showed constant expression in mature fruiting bodies and free-living mycelium in L. bicolor.
Most neurons of the auditory pathway show a "best frequency"—i.e., a frequency to which the individual neuron responds at minimal intensity.
