RNA modification

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

The most reproducible pathway-associated genes across cancer lineages are ABL2, ZNF257, and PDE9A, 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 box plot shows the strongest association, ABL2 grouped by RNA modification-low versus -high activity in PANCREAS.

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
PANCREAS	ABL2 →	+0.164	+0.186	<.001	<.001	3	5
SOFT_TISSUE	ZNF257 →	+0.257	+0.146	<.001	.007	3	5
BLOOD_Leukemia	PDE9A →	+0.230	+0.139	.001	<.001	2	6
LARGE_INTESTINE	TRIM49B →	-0.283	-0.165	<.001	.008	3	4
STOMACH	KAT14 →	+0.162	+0.110	.002	.006	3	4
CNS	MCM5 →	+0.179	+0.113	.002	.009	3	4

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

ABL2 by RNA modification activity — PANCREAS

Explore this box plot interactively →