Regulation by virus of viral protein levels in host cell

Across TCGA cell cohorts, RNA activity of the Regulation by virus of viral protein levels in host cell 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 HACD3, NPTN, and SPPL2A, 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, Regulation by virus of viral protein levels in host cell activity versus HACD3 in BREAST (Pearson r = 0.44).

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	HACD3 →	+0.775	+0.196	<.001	.001	2	7
OESOPHAGUS	NPTN →	+1.009	+0.187	.003	.002	3	6
LIVER	SPPL2A →	+0.900	+0.238	.003	.004	3	5
LIVER	C3orf33 →	+0.990	+0.325	.007	.004	3	5
BLOOD_Myeloma	CEP104 →	+0.870	+0.471	.001	.009	3	5
BREAST	MAGED2 →	+1.344	+0.236	.005	.001	3	5

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

GO:0046719 vs HACD3 — BREAST

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