Defense response to Gram-negative bacterium

Across TCGA patient cohorts, RNA activity of the Defense response to Gram-negative bacterium pathway is significantly associated with the RNA expression of multiple genes, with the OV cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are VSIG4, CXCL12, and CYP1B1, each associated with the pathway in up to 7 cancer types. Since the analysis shows associations rather than directional relationships, both pathway-to-partner and partner-to-pathway views are reported.

Each partner is linked to its corresponding Q-omics profile. The scatter plot shows the strongest association, Defense response to Gram-negative bacterium activity versus VSIG4 in OV (Pearson r = 0.28).

Pathway-associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (pathway→partner) and Y-score (partner→pathway) are standardized regression coefficients; both directions are reported because the association is undirected. The reported p-values are derived from the association test.

Lineage	Partner gene	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
OV	VSIG4 →	+0.668	+0.149	.009	.009	3	7
OV	CXCL12 →	+1.165	+0.284	.009	.001	3	6
LSCC	CYP1B1 →	+0.876	+0.301	<.001	<.001	3	6
OV	CLMP →	+1.153	+0.247	.001	.001	3	6
LUAD	GAS1 →	+0.877	+0.249	<.001	<.001	3	6
COAD	CD300E →	+1.094	+0.184	<.001	<.001	3	6

Each partner links to its Q-omics profile. Showing the 6 strongest associations by consensus.

GO:0050829 vs VSIG4 — OV

Explore this scatter interactively →