Response to tumor necrosis factor

Across TCGA cell cohorts, RNA activity of the Response to tumor necrosis factor pathway is significantly associated with the RNA expression of multiple genes, with the BREAST cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are BRF2, RBM3, and NFIX, each associated with the pathway in up to 4 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 box plot shows the strongest association, BRF2 grouped by Response to tumor necrosis factor-low versus -high activity in BREAST.

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
BREAST	BRF2 →	+1.269	+0.103	.001	.007	3	4
LIVER	RBM3 →	+0.806	+0.163	.004	.005	3	4
LIVER	NFIX →	+2.323	+0.134	.004	.003	3	4
LUNG_NSCLC_LUSC	VGLL4 →	+1.174	+0.261	.002	<.001	3	3
UPPER_AERODIGESTIVE_TRACT	UQCRB →	+1.008	+0.176	.002	<.001	3	3
LUNG_NSCLC_LUSC	PPP1R2 →	+1.635	+0.330	<.001	.001	3	3

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

BRF2 by Response to tumor necrosis factor activity — BREAST

Explore this box plot interactively →