AFP

Across TCGA patient cohorts, AFP mutation is significantly associated with the RNA expression of many other genes, with 2,424 significant associations in total. UCEC shows the largest number of these associations.

The most reproducible AFP-associated genes across cancer lineages are PKN3, RNU7-134P, and MIR6803. Each is linked with AFP in more than 2 cancer types. Because this analysis shows association rather than direction, both AFP-to-partner and partner-to-AFP results are reported.

Each partner links to its own Q-omics profile. The box plot shows the strongest example, PKN3 grouped by AFP-low versus AFP-high in UCEC.

mutation associated genes by consensus

Ranked by combined sampling and lineage consensus. X-score (AFP→partner) and Y-score (partner→AFP) 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
UCEC	PKN3 →	+0.811	+2.654	<.001	<.001	3	3
LGG	RNU7-134P →	+0.540	+5.602	<.001	.004	3	2
UCEC	MIR6803 →	+0.094	+3.723	<.001	.008	3	2
UCEC	JOSD1 →	+0.496	+2.643	<.001	<.001	3	2
UCEC	MCAT →	+0.392	+1.981	<.001	<.001	3	2
UCEC	PHF5A →	+0.502	+2.643	<.001	<.001	3	2

Each partner links to its Q-omics profile. Showing the 6 strongest of 2,424 associations by consensus.

PKN3 by AFP expression — UCEC

Explore this box plot interactively →