Negative regulation of transcription by RNA polymerase I

Across TCGA cell cohorts, RNA activity of the Negative regulation of transcription by RNA polymerase I 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 VANGL2, ARHGEF17, and TNFRSF1A, 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 scatter plot shows the strongest association, Negative regulation of transcription by RNA polymerase I activity versus VANGL2 in BREAST (Pearson r = 0.49).

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	VANGL2 →	+1.619	+0.126	.002	.004	3	5
LUNG_SCLC	ARHGEF17 →	+1.229	+0.171	.004	<.001	3	4
BLOOD_Leukemia	TNFRSF1A →	-1.260	-0.147	.001	.001	3	4
LARGE_INTESTINE	ANP32E →	+0.928	+0.204	<.001	.003	3	4
SKIN	EHBP1 →	-0.725	-0.140	.007	.002	3	4
SKIN	TMEM128 →	-0.533	-0.231	.002	<.001	3	4

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

GO:0016479 vs VANGL2 — BREAST

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