Protein localization to condensed chromosome

Across TCGA cell cohorts, RNA activity of the Protein localization to condensed chromosome pathway is significantly associated with the RNA expression of multiple genes, with the CNS cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are VASH2, MEX3A, and EFNA4, each associated with the pathway in up to 8 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, Protein localization to condensed chromosome activity versus VASH2 in CNS (Pearson r = 0.48).

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
CNS	VASH2 →	+0.834	+0.645	.001	.007	3	8
BLOOD_Leukemia	MEX3A →	+1.706	+0.203	<.001	<.001	2	8
BLOOD_Myeloma	EFNA4 →	+1.083	+0.304	.008	.002	3	6
STOMACH	KMT5C →	+2.074	+0.301	<.001	<.001	3	5
BLOOD_Lymphoma	C1GALT1C1 →	-1.208	-0.180	.005	<.001	3	5
SOFT_TISSUE	PATZ1 →	+0.997	+0.288	.001	.001	3	5

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

GO:1903083 vs VASH2 — CNS

Explore this scatter interactively →