mRNA modification

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

The most reproducible pathway-associated genes across cancer lineages are ZC3H13, SERPINA12, and PRKN, each associated with the pathway in up to 4 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, ZC3H13 grouped by mRNA modification-low versus -high activity in LUNG_NSCLC_LUSC.

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
LUNG_NSCLC_LUSC	ZC3H13 →	-0.410	-0.323	.006	.004	3	4
LUNG_NSCLC_LUSC	SERPINA12 →	+0.261	+0.438	.001	.002	3	4
BLOOD_Lymphoma	PRKN →	+0.353	+0.470	.004	<.001	3	4
LUNG_NSCLC_LUAD	FCRLA →	+0.120	+0.682	.003	.005	3	4
BONE	CLPB →	-0.183	-0.347	.009	<.001	3	4
KIDNEY	ZFYVE16 →	+0.247	+0.340	.003	.002	3	4

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

ZC3H13 by mRNA modification activity — LUNG_NSCLC_LUSC

Explore this box plot interactively →