Base conversion or substitution editing

Across TCGA patient cohorts, RNA activity of the Base conversion or substitution editing pathway is significantly associated with the RNA expression of multiple genes, with the BRCA cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are TRBV12-4, ST3GAL1, and GZMH, 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 scatter plot shows the strongest association, Base conversion or substitution editing activity versus TRBV12-4 in BRCA (Pearson r = 0.46).

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
BRCA	TRBV12-4 →	+0.930	+0.196	<.001	<.001	3	4
LUAD	ST3GAL1 →	+0.636	+0.191	.004	<.001	3	3
BRCA	GZMH →	+1.164	+0.200	<.001	<.001	3	3
BRCA	CRTAM →	+0.561	+0.171	<.001	<.001	3	3
BRCA	AMPD1 →	+0.412	+0.150	.005	.001	3	3
BRCA	PLA2G2D →	+1.250	+0.223	<.001	<.001	3	3

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

GO:0016553 vs TRBV12-4 — BRCA

Explore this scatter interactively →