Cranial skeletal system development

Across TCGA cell cohorts, RNA activity of the Cranial skeletal system development pathway is significantly associated with the RNA expression of multiple genes, with the SKIN cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are PDCD7, ARHGAP32, and SAMD4A, 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, PDCD7 grouped by Cranial skeletal system development-low versus -high activity in SKIN.

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
SKIN	PDCD7 →	+0.734	+0.235	.002	.002	3	5
UPPER_AERODIGESTIVE_TRACT	ARHGAP32 →	+1.257	+0.193	.001	.007	3	4
LARGE_INTESTINE	SAMD4A →	-1.271	-0.190	.008	.008	3	4
LUNG_NSCLC_LUSC	ARID1A →	+0.717	+0.228	.002	.004	3	4
BLOOD_Leukemia	HERC2 →	+0.979	+0.383	.001	<.001	3	4
BONE	EPB41 →	+3.667	+0.268	.002	.005	3	4

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

PDCD7 by Cranial skeletal system development activity — SKIN

Explore this box plot interactively →