Regulation of RNA polymerase II transcription preinitiation complex assembly

Across TCGA cell 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 SKIN cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are PTCHD4, FDXR, and RPS27L, 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 box plot shows the strongest association, PTCHD4 grouped by Regulation of RNA polymerase II transcription preinitiation complex assembly-low versus -high activity in SKIN.

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
SKIN	PTCHD4 →	-1.550	-0.979	<.001	<.001	3	7
SKIN	FDXR →	-1.269	-0.746	<.001	.008	3	5
OVARY	RPS27L →	-1.652	-0.377	<.001	<.001	3	4
SKIN	DDB2 →	-0.884	-0.909	.002	<.001	3	4
SKIN	MDM2 →	-1.912	-1.086	<.001	<.001	3	4
OVARY	BBC3 →	-1.586	-0.335	<.001	<.001	3	4

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

PTCHD4 by Regulation of RNA polymerase II transcription preinitiation complex assembly activity — SKIN

Explore this box plot interactively →