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 LUNG_NSCLC_LUSC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are LOXL3, LOXL1, and LOXL2, each associated with the pathway in up to 12 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, LOXL3 grouped by Peptidyl-lysine oxidation-low versus -high activity in LUNG_NSCLC_LUSC.

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
LUNG_NSCLC_LUSC	LOXL3 →	-0.542	-1.898	.004	.004	3	12
OESOPHAGUS	LOXL1 →	-0.472	-2.014	.002	.002	3	11
BLOOD_Myeloma	LOXL2 →	-0.252	-0.640	<.001	.002	3	8
UPPER_AERODIGESTIVE_TRACT	SGMS2 →	-0.237	-2.032	.004	<.001	3	5
UPPER_AERODIGESTIVE_TRACT	TPRX1 →	-0.228	-1.405	<.001	.001	3	5
UPPER_AERODIGESTIVE_TRACT	IGF2BP2 →	-0.329	-2.237	<.001	<.001	3	5

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

LOXL3 by Peptidyl-lysine oxidation activity — LUNG_NSCLC_LUSC

Explore this box plot interactively →