Unsupervised Bayesian linear unmixing of gene expression microarrays

BMC Bioinformatics

Table 8 NCI-curated pathway associations of group of genes contributing to NMF inflammatory component

Pathway name	Genes	P-value
IL23-mediated signaling events	CCL2, CXCL1, CXCL9, IL1B, JAK2, STAT1, STAT5A	2.18e-07
IL12-mediated signaling events	GADD45B, IL1B, JAK2, MAP2K6, SOCS1, STAT1, STAT5A, STAT6	1.10e-06
IFN-gamma pathway	CASP1, IL1B, IRF9, JAK2, SOCS1, STAT1	1.07e-05
Signaling events mediated by TCPTP	EIF2AK2, PIK3R2, STAT1, STAT5A, STAT5B, STAT6	1.07e-05
IL27-mediated signaling events	IL1B, JAK2, STAT1, STAT2, STAT5A	1.22e-05
CXCR3-mediated signaling events	CXCL10, CXCL11, CXCL13, CXCL9, MAP2K6, PIK3R2	1.23e-05
GMCSF-mediated signaling events	CCL2, JAK2, STAT1, STAT5A, STAT5B	6.24e-05
PDGFR-beta signaling pathway	EIF2AK2, JAK2, PIK3R2, ARAP1, DOCK4, STAT1, STAT5A, STAT5B	1.38e-04

NCI-curated pathway associations of group of genes contributing to NMF inflammatory component, whose factor scores are shown in Figure 4 (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 6).

ISSN: 1471-2105