Pyrimidine-containing compound salvage

Across TCGA cell cohorts, RNA activity of the Pyrimidine-containing compound salvage pathway is significantly associated with the shRNA dependency of multiple genes, with the BONE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are HEXA, RAPGEF1, and RAB3GAP2, 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, HEXA grouped by Pyrimidine-containing compound salvage-low versus -high activity in BONE.

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
BONE	HEXA →	-0.412	-0.174	.003	.001	3	4
LUNG_NSCLC_LUSC	RAPGEF1 →	+0.550	+0.227	.004	<.001	3	4
BONE	RAB3GAP2 →	-0.300	-0.151	.005	.003	3	4
BLOOD_Lymphoma	PCLO →	+0.506	+0.149	.001	.004	3	4
LUNG_NSCLC_LUSC	SHOX →	+0.205	+0.192	.004	.006	3	4
LUNG_SCLC	TAS2R5 →	+0.194	+0.143	<.001	<.001	3	4

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

HEXA by Pyrimidine-containing compound salvage activity — BONE

Explore this box plot interactively →