Unsupervised Bayesian linear unmixing of gene expression microarrays

BMC Bioinformatics

Table 6 NCI-curated pathway associations of group of genes contributing to uBLU inflammatory component

Pathway name	Genes	P-value
IFN-gamma pathway	CASP1, CEBPB, IL1B, IRF1, IRF9, PRKCD, SOCS1, STAT1, STAT3	1.34e-09
PDGFR-beta signaling pathway	DOCK4, EIF2AK2, FYN, HCK, LYN, PRKCD, SLA, SRC, STAT1, STAT3, STAT5A, STAT5B	3.26e-08
IL23-mediated signaling events	CCL2, CXCL1, CXCL9, IL1B, STAT1, STAT3, STAT5A	2.18e-07
Signaling events mediated by TCPTP	EIF2AK2, SRC, STAT1, STAT3, STAT5A, STAT5B, STAT6	6.38e-07
Signaling events mediated by PTP1B	FYN, HCK, LYN, SRC, STAT3, STAT5A, STAT5B	2.40e-06
GMCSF-mediated signaling events	CCL2, LYN, STAT1, STAT3, STAT5A, STAT5B	3.70e-06
IL12-mediated signaling events	HLA-A, IL1B, SOCS1, STAT1, STAT3, STAT5A, STAT6	1.32e-05
IL6-mediated signaling events	CEBPB, HCK, IRF1, PRKCD, STAT1, STAT3	1.80e-05

NCI-curated pathway associations of group of genes contributing to uBLU inflammatory component, whose factor scores are shown in Figure 1 (Source: NCI pathway interaction database http://pid.nci.nih.gov). Genes in uBLU factor are significantly better represented in the NCI-curated pathways than the genes in NMF (compare p-values here to those in Table 8).

ISSN: 1471-2105