Clearance of foreign intracellular nucleic acids

Across TCGA cell cohorts, RNA activity of the Clearance of foreign intracellular nucleic acids pathway is significantly associated with the shRNA dependency of multiple genes, with the URINARY_TRACT cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are LRRC23, CDC42BPB, and BPTF, each associated with the pathway in up to 5 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, LRRC23 grouped by Clearance of foreign intracellular nucleic acids-low versus -high activity in URINARY_TRACT.

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
URINARY_TRACT	LRRC23 →	-0.263	-0.178	.003	.007	3	5
URINARY_TRACT	CDC42BPB →	-0.200	-0.200	.003	.001	3	4
LARGE_INTESTINE	BPTF →	-0.276	-0.959	.009	.003	3	4
LUNG_SCLC	SENP1 →	-0.334	-1.478	.005	.002	2	4
UPPER_AERODIGESTIVE_TRACT	RABL2B →	+0.227	+0.140	.003	<.001	3	3
UPPER_AERODIGESTIVE_TRACT	ALPP →	-0.251	-0.158	.001	<.001	3	3

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

LRRC23 by Clearance of foreign intracellular nucleic acids activity — URINARY_TRACT

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