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

Open Data