Response to Gram-positive bacterium

Across TCGA cell cohorts, RNA activity of the Response to Gram-positive bacterium pathway is significantly associated with the shRNA dependency of multiple genes, with the LUNG_SCLC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are DAZ3, PDCL3, and ROCK2, each associated with the pathway in up to 2 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, DAZ3 grouped by Response to Gram-positive bacterium-low versus -high activity in LUNG_SCLC.

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
LUNG_SCLC	DAZ3 →	+0.266	+1.699	.008	<.001	3	2
LARGE_INTESTINE	PDCL3 →	+0.225	+0.318	<.001	<.001	3	2
LARGE_INTESTINE	ROCK2 →	-0.295	-0.238	.003	.001	3	2
LARGE_INTESTINE	LETM2 →	+0.198	+0.178	<.001	.001	3	2
LARGE_INTESTINE	RNASE2 →	+0.196	+0.241	.003	.007	3	2
LUNG_SCLC	INCENP →	+0.354	+1.331	.002	<.001	3	2

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

DAZ3 by Response to Gram-positive bacterium activity — LUNG_SCLC

Explore this box plot interactively →