mRNA modification

Across TCGA cell cohorts, RNA activity of the mRNA modification pathway is significantly associated with the RNA expression of multiple genes, with the STOMACH cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are PLPBP, DMKN, and CLPP, 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, mRNA modification activity versus PLPBP in STOMACH (Pearson r = -0.66).

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
STOMACH	PLPBP →	-0.878	-0.335	<.001	<.001	3	6
STOMACH	DMKN →	+4.627	+0.367	.001	<.001	3	6
BONE	CLPP →	-0.999	-0.315	<.001	.003	3	5
LIVER	SMARCB1 →	-1.388	-0.355	.002	<.001	3	5
STOMACH	HAPLN3 →	+2.247	+0.265	<.001	.002	2	6
LARGE_INTESTINE	SUCLA2 →	-0.675	-0.236	.001	.006	3	5

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

GO:0016556 vs PLPBP — STOMACH

Explore this scatter interactively →