Substantia nigra development

Across TCGA patient cohorts, RNA activity of the Substantia nigra development pathway is significantly associated with the RNA expression of multiple genes, with the HNSC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are TMEM156, CCDC69, and ITM2A, each associated with the pathway in up to 6 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, Substantia nigra development activity versus TMEM156 in HNSC (Pearson r = 0.23).

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
HNSC	TMEM156 →	+0.716	+0.138	.002	.001	3	6
GBM	CCDC69 →	+0.671	+0.181	.001	.001	3	6
UCEC	ITM2A →	+0.827	+0.171	.006	<.001	3	5
COAD	CD79B →	+0.582	+0.101	.001	.002	3	5
HNSC	RCSD1 →	+0.615	+0.124	.004	.001	3	5
GBM	GYPC →	+0.932	+0.238	<.001	<.001	3	5

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

GO:0021762 vs TMEM156 — HNSC

Explore this scatter interactively →