Soft palate development

Across TCGA cell cohorts, RNA activity of the Soft palate development 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 NIPSNAP2, STX3, and C1QL4, 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, NIPSNAP2 grouped by Soft palate development-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	NIPSNAP2 →	+0.350	+1.793	.001	<.001	3	4
BONE	STX3 →	-0.305	-1.824	<.001	<.001	2	5
BONE	C1QL4 →	+0.425	+1.851	<.001	<.001	3	4
BREAST	CDHR3 →	-0.262	-0.917	<.001	.001	3	4
UPPER_AERODIGESTIVE_TRACT	CACNG8 →	-0.171	-1.164	.009	.004	3	4
LUNG_NSCLC_LUAD	SOS2 →	-0.124	-0.699	.002	.004	3	3

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

NIPSNAP2 by Soft palate development activity — BONE

Explore this box plot interactively →