Regulation of RNA polymerase II transcription preinitiation complex assembly

Across TCGA patient cohorts, RNA activity of the Regulation of RNA polymerase II transcription preinitiation complex assembly pathway is significantly associated with the RNA expression of multiple genes, with the LSCC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are CTCF, VNN2, and ECT2, each associated with the pathway in up to 4 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 RNA polymerase II transcription preinitiation complex assembly activity versus CTCF in LSCC (Pearson r = 0.15).

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
LSCC	CTCF →	+0.263	+0.154	.003	.002	3	3
LSCC	VNN2 →	-0.850	-0.221	<.001	.001	3	3
LSCC	ECT2 →	+0.748	+0.208	<.001	<.001	3	3
LSCC	RPA1 →	+0.390	+0.148	.001	.004	3	3
LSCC	CKAP2 →	+0.454	+0.149	.001	.004	3	3
LSCC	SAMD1 →	+0.377	+0.168	.001	.001	3	3

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

GO:0045898 vs CTCF — LSCC

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