Bone morphogenesis

Across TCGA cell cohorts, RNA activity of the Bone morphogenesis pathway is significantly associated with the RNA expression of multiple genes, with the LIVER cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are GINS3, USP39, and ARL5B, 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, GINS3 grouped by Bone morphogenesis-low versus -high activity in LIVER.

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
LIVER	GINS3 →	+0.618	+0.928	<.001	.004	3	5
SKIN	USP39 →	+0.413	+0.916	.001	.006	3	5
LIVER	ARL5B →	+0.944	+0.947	<.001	.003	3	4
SKIN	MFSD9 →	+0.271	+0.753	.004	<.001	3	4
KIDNEY	TMEM217 →	-0.676	-0.918	.002	.001	3	3
BLOOD_Myeloma	LYL1 →	-2.588	-1.430	<.001	.001	3	3

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

GINS3 by Bone morphogenesis activity — LIVER

Explore this box plot interactively →