Protein modification by small protein removal

Across TCGA cell cohorts, RNA activity of the Protein modification by small protein removal pathway is significantly associated with the protein abundance of multiple proteins, with the LUNG_NSCLC_LUSC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are PPP2R1A, CCT2, and COPS6, each associated with the pathway in up to 19 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, Protein modification by small protein removal activity versus PPP2R1A in LUNG_NSCLC_LUSC (Pearson r = 0.81).

Pathway-associated proteins 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 protein	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
LUNG_NSCLC_LUSC	PPP2R1A →	+1.186	+0.366	<.001	<.001	3	19
LARGE_INTESTINE	CCT2 →	+1.379	+0.219	<.001	.001	3	19
UPPER_AERODIGESTIVE_TRACT	COPS6 →	+1.668	+0.992	<.001	.002	3	19
LUNG_NSCLC_LUSC	ELOB →	+1.153	+0.305	.003	.003	3	18
LARGE_INTESTINE	SKP1 →	+0.808	+0.178	.002	.008	3	18
LARGE_INTESTINE	CCT4 →	+1.387	+0.229	<.001	.001	3	18

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

GO:0070646 vs PPP2R1A — LUNG_NSCLC_LUSC

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