Viral protein processing

Across TCGA cell cohorts, RNA activity of the Viral protein processing 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 PRMT1, CSNK1A1, and SCN9A, each associated with the pathway in up to 8 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, PRMT1 grouped by Viral protein processing-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	PRMT1 →	-0.502	-1.354	.002	.005	2	8
LUNG_SCLC	CSNK1A1 →	-0.505	-1.567	.005	.001	2	6
OVARY	SCN9A →	-0.210	-1.331	.002	.002	3	5
BLOOD_Lymphoma	PKN2 →	+0.490	+2.233	.001	<.001	3	4
BONE	ARHGEF10 →	-0.256	-1.884	.008	<.001	3	4
BONE	TAS1R1 →	-0.320	-2.000	.006	<.001	3	4

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

PRMT1 by Viral protein processing activity — LUNG_SCLC

Explore this box plot interactively →