Peptidyl-lysine modification

Across TCGA patient cohorts, RNA activity of the Peptidyl-lysine modification pathway is significantly associated with the protein abundance of multiple proteins, with the LSCC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are SMARCC2, VCAN, and PCOLCE, 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 scatter plot shows the strongest association, Peptidyl-lysine modification activity versus SMARCC2 in LSCC (Pearson r = 0.26).

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
LSCC	SMARCC2 →	+0.143	+0.024	<.001	<.001	3	6
CCRCC	VCAN →	+0.768	+0.020	<.001	<.001	3	6
CCRCC	PCOLCE →	+0.692	+0.021	<.001	<.001	3	6
PDAC	ANO10 →	-0.376	-0.018	.002	.002	3	6
HNSC	RCOR3 →	+0.355	+0.055	<.001	<.001	3	5
HNSC	S100A9 →	-1.027	-0.065	<.001	<.001	3	5

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

GO:0018205 vs SMARCC2 — LSCC

Explore this scatter interactively →