Chromatin looping

Across TCGA cell cohorts, RNA activity of the Chromatin looping pathway is significantly associated with the RNA expression of multiple genes, with the LUNG_NSCLC_LUAD cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are ALDH18A1, ZNF41, and CDC14A, 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, ALDH18A1 grouped by Chromatin looping-low versus -high activity in LUNG_NSCLC_LUAD.

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_LUAD	ALDH18A1 →	-0.604	-0.236	.006	.001	3	5
KIDNEY	ZNF41 →	+0.687	+0.409	<.001	.003	3	4
KIDNEY	CDC14A →	+0.761	+0.336	.005	.001	3	4
URINARY_TRACT	SMC1A →	-0.894	-0.404	.009	.002	3	4
LUNG_NSCLC_LUAD	ARMH3 →	-0.450	-0.231	.001	.001	3	4
STOMACH	SYDE1 →	-2.422	-0.346	.002	.003	3	4

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

ALDH18A1 by Chromatin looping activity — LUNG_NSCLC_LUAD

Explore this box plot interactively →