Regulation of transcription elongation by RNA polymerase II

Across TCGA cell cohorts, RNA activity of the Regulation of transcription elongation by RNA polymerase II pathway is significantly associated with the RNA expression of multiple genes, with the BONE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are HCFC1, CARMIL2, and RNF135, each associated with the pathway in up to 6 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 of transcription elongation by RNA polymerase II activity versus HCFC1 in BONE (Pearson r = 0.76).

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
BONE	HCFC1 →	+0.995	+0.688	.003	.007	3	6
LIVER	CARMIL2 →	+1.276	+1.185	<.001	<.001	3	6
LUNG_NSCLC_LUSC	RNF135 →	-1.919	-1.198	.007	<.001	3	5
LARGE_INTESTINE	ZNF346 →	+0.910	+0.845	.001	<.001	3	5
BLOOD_Leukemia	ATG7 →	-1.092	-0.828	<.001	<.001	3	5
STOMACH	MVP →	-3.235	-1.457	<.001	.001	3	5

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

GO:0034243 vs HCFC1 — BONE

Explore this scatter interactively →