Table 9 |
||||
Contribution of each of uBLU’s constraints | ||||
Without | Positivity | Sum-to-one | Positivity and | |
constraints | sum-to-one | |||
P-value of the “IFN-gamma pathway” | 6.00.10^{−2} | 2.05.10^{−2} | 2.17.10^{−1} | 1.34.10^{−9} |
P-value of the “IL23-mediated signaling events” | 2.60.10^{−1} | 8.37.10^{−2} | 2.28.10^{−2} | 2.18.10^{−7} |
Benefit of constraints in uBLU in terms of gene enrichment in the NCI-curated IFN-gamma and IL23-mediated pathways. As in Tables 6 and 8, the top 200 genes in the inflammatory components, whose scores are shown in Figures 6(a-d), were analyzed using the NCI Pathway Interaction Database. Both positivity and sum-to-one constraints are necessary for uBLU to reveal these two pathways with the high significance (p-value less than 10^{−6}).
Bazot et al.
Bazot et al. BMC Bioinformatics 2013 14:99 doi:10.1186/1471-2105-14-99