Peptidyl-lysine oxidation

Across TCGA cell cohorts, RNA activity of the Peptidyl-lysine oxidation 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 PDCD10, MRPS5, and NXF1, each associated with the pathway in up to 5 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, PDCD10 grouped by Peptidyl-lysine oxidation-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	PDCD10 →	-0.240	-0.894	.009	.002	3	5
BREAST	MRPS5 →	-0.395	-1.032	<.001	.002	3	5
BREAST	NXF1 →	-0.460	-0.997	.005	.005	3	5
LUNG_NSCLC_LUSC	PRKCZ →	-0.229	-1.257	<.001	.001	3	5
BONE	PRDX1 →	+0.441	+1.959	.008	<.001	2	5
BONE	MAX →	-0.516	-1.941	.001	<.001	3	4

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

PDCD10 by Peptidyl-lysine oxidation activity — BREAST

Explore this box plot interactively →