Basement membrane assembly

Across TCGA cell cohorts, RNA activity of the Basement membrane assembly pathway is significantly associated with the shRNA dependency of multiple genes, with the BREAST cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are HCCS, PNPT1, and BAK1, 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, HCCS grouped by Basement membrane assembly-low versus -high activity in BREAST.

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
BREAST	HCCS →	-0.307	-0.605	.002	.009	3	5
LIVER	PNPT1 →	-0.484	-1.293	.002	.004	3	5
BONE	BAK1 →	-0.170	-0.261	.008	.002	3	4
OESOPHAGUS	RAPGEF6 →	+0.176	+1.007	.004	.009	3	4
LIVER	ACLY →	-0.414	-1.532	.003	<.001	3	4
LIVER	IRS1 →	-0.211	-1.557	.001	<.001	3	4

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

HCCS by Basement membrane assembly activity — BREAST

Explore this box plot interactively →