Pharyngeal system development

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

The most reproducible pathway-associated genes across cancer lineages are TGFB2, PAPPA2, and SIM2, 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 scatter plot shows the strongest association, Pharyngeal system development activity versus TGFB2 in LSCC (Pearson r = 0.18).

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
LSCC	TGFB2 →	+0.760	+0.233	<.001	<.001	3	4
CCRCC	PAPPA2 →	+0.647	+0.462	.004	.005	3	3
CCRCC	SIM2 →	+0.238	+0.573	.001	<.001	3	3
CCRCC	SLIT2-IT1 →	+0.632	+0.451	.001	.005	3	3
CCRCC	WSCD2 →	+0.339	+0.530	<.001	.004	3	3
LSCC	WLS →	+0.575	+0.183	.005	.003	3	3

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

GO:0060037 vs TGFB2 — LSCC

Explore this scatter interactively →