PNKP

Across TCGA patient cohorts, PNKP mutation is significantly associated with the RNA expression of many other genes, with 580 significant associations in total. UCEC shows the largest number of these associations.

The most reproducible PNKP-associated genes across cancer lineages are RNU6ATAC22P, MIR4507, and TRMU. Each is linked with PNKP in more than 2 cancer types. Because this analysis shows association rather than direction, both PNKP-to-partner and partner-to-PNKP results are reported.

Each partner links to its own Q-omics profile. The box plot shows the strongest example, RNU6ATAC22P grouped by PNKP-low versus PNKP-high in SKCM.

mutation associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (PNKP→partner) and Y-score (partner→PNKP) are standardized regression coefficients; both directions are reported because the association is undirected. p-values are from the association test.

Lineage	Partner gene	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
SKCM	RNU6ATAC22P →	+0.295	+4.462	<.001	<.001	3	3
HNSC	MIR4507 →	+0.390	+3.163	<.001	.004	3	3
UCEC	TRMU →	+0.502	+3.616	<.001	.001	3	2
BRCA	RNU6-259P →	+0.189	+7.473	<.001	.007	3	2
BRCA	MTCYBP10 →	+0.053	+4.575	.007	.009	3	2
BRCA	LINC01953 →	+0.884	+4.243	<.001	.009	3	2

Each partner links to its Q-omics profile. Showing the 6 strongest of 580 associations by consensus.

RNU6ATAC22P by PNKP expression — SKCM

Explore this box plot interactively →