Neural crest cell differentiation

Across TCGA cell cohorts, RNA activity of the Neural crest cell differentiation pathway is significantly associated with the RNA expression of multiple genes, with the LARGE_INTESTINE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are SETD3, ZDHHC2, and PLEKHJ1, 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, SETD3 grouped by Neural crest cell differentiation-low versus -high activity in LARGE_INTESTINE.

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
LARGE_INTESTINE	SETD3 →	-0.446	-0.167	.001	<.001	3	3
LUNG_SCLC	ZDHHC2 →	-1.450	-0.172	<.001	.005	3	3
LUNG_SCLC	PLEKHJ1 →	-1.176	-0.253	<.001	.005	3	3
LUNG_SCLC	ARHGAP25 →	-1.780	-0.253	.002	<.001	3	3
LUNG_SCLC	DLL1 →	-4.286	-0.249	<.001	.002	3	3
LUNG_SCLC	PAGR1 →	-0.727	-0.205	.008	.006	3	3

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

SETD3 by Neural crest cell differentiation activity — LARGE_INTESTINE

Explore this box plot interactively →