N-terminal protein amino acid modification

Across TCGA cell cohorts, RNA activity of the N-terminal protein amino acid modification pathway is significantly associated with the RNA expression of multiple genes, with the URINARY_TRACT cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are LYPD3, PCM1, and EXOSC2, each associated with the pathway in up to 7 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, N-terminal protein amino acid modification activity versus LYPD3 in URINARY_TRACT (Pearson r = -0.59).

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
URINARY_TRACT	LYPD3 →	-4.251	-1.333	<.001	.005	3	7
LUNG_NSCLC_LUAD	PCM1 →	+0.552	+1.035	.001	<.001	3	7
PANCREAS	EXOSC2 →	+1.092	+1.579	<.001	<.001	3	6
SKIN	GBP3 →	-1.572	-1.127	<.001	<.001	3	6
SKIN	RRAS →	-1.512	-0.958	<.001	.002	3	6
BREAST	CTSD →	-1.885	-1.295	.005	.004	3	6

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

GO:0031365 vs LYPD3 — URINARY_TRACT

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