Peptidyl-proline modification

Across TCGA cell cohorts, RNA activity of the Peptidyl-proline modification pathway is significantly associated with the RNA expression of multiple genes, with the KIDNEY cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are VGLL4, MRM3, and ZGRF1, 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 box plot shows the strongest association, VGLL4 grouped by Peptidyl-proline modification-low versus -high activity in KIDNEY.

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
KIDNEY	VGLL4 →	-1.181	-0.903	.008	.003	3	4
KIDNEY	MRM3 →	-0.508	-1.255	.003	<.001	3	4
BONE	ZGRF1 →	+1.062	+1.551	.005	.007	3	4
BLOOD_Lymphoma	TSR1 →	-1.156	-1.278	.006	.003	3	4
BLOOD_Lymphoma	HMGN4 →	-0.919	-1.332	.002	.006	3	4
LARGE_INTESTINE	HJURP →	+0.639	+0.765	<.001	.004	3	4

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

VGLL4 by Peptidyl-proline modification activity — KIDNEY

Explore this box plot interactively →