Embryonic brain development

Across TCGA cell cohorts, RNA activity of the Embryonic brain development pathway is significantly associated with the shRNA dependency of multiple genes, with the LUNG_NSCLC_LUSC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are TRAF5, MED12, and TRA2B, 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 box plot shows the strongest association, TRAF5 grouped by Embryonic brain development-low versus -high activity in LUNG_NSCLC_LUSC.

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
LUNG_NSCLC_LUSC	TRAF5 →	+0.263	+0.343	.005	.001	3	6
PANCREAS	MED12 →	-0.654	-0.263	.008	.003	3	5
KIDNEY	TRA2B →	-0.433	-0.360	.007	.003	3	5
KIDNEY	CBLIF →	+0.275	+0.217	<.001	.001	3	4
LUNG_SCLC	NPVF →	+0.143	+0.211	.007	.005	3	4
URINARY_TRACT	MAP1LC3B →	+0.192	+0.320	.009	.006	3	4

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

TRAF5 by Embryonic brain development activity — LUNG_NSCLC_LUSC

Explore this box plot interactively →