"Base-excision repair, AP site formation"

Across TCGA cell cohorts, RNA activity of the "Base-excision repair, AP site formation" 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 IGFBP6, CAVIN1, and EHD2, each associated with the pathway in up to 5 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, IGFBP6 grouped by "Base-excision repair, AP site formation"-low versus -high activity in STOMACH.

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	IGFBP6 →	-2.645	-1.329	.009	<.001	3	5
STOMACH	CAVIN1 →	-2.835	-1.145	.006	.005	3	4
STOMACH	EHD2 →	-2.439	-0.913	.004	.006	3	4
STOMACH	CCDC80 →	-3.267	-1.268	.002	<.001	3	4
LUNG_NSCLC_LUAD	EXOC3L4 →	-0.652	-0.842	.001	.001	3	4
BREAST	MGST1 →	-2.987	-0.802	.003	.001	3	4

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

IGFBP6 by "Base-excision repair, AP site formation" activity — STOMACH

Explore this box plot interactively →