Regulation of cartilage development

Across TCGA cell cohorts, RNA activity of the Regulation of cartilage development 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 SNRPD2, NOG, and HOXD4, 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, SNRPD2 grouped by Regulation of cartilage development-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	SNRPD2 →	-0.410	-0.417	<.001	.003	2	6
OVARY	NOG →	-0.194	-0.226	<.001	.001	3	4
SKIN	HOXD4 →	-0.109	-0.422	.003	.005	3	4
BLOOD_Myeloma	RXRG →	-0.420	-0.378	<.001	.003	3	4
BREAST	RPS13 →	-0.330	-0.412	.001	.007	3	3
BREAST	GPN3 →	+0.420	+0.337	<.001	.006	2	4

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

SNRPD2 by Regulation of cartilage development activity — BREAST

Explore this box plot interactively →