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 SOFT_TISSUE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are SLF2, SMC5, and ZGRF1, 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, Chromatin looping activity versus SLF2 in SOFT_TISSUE (Pearson r = 0.74).

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
SOFT_TISSUE	SLF2 →	+1.414	+0.082	<.001	<.001	3	19
URINARY_TRACT	SMC5 →	+1.183	+0.103	.003	<.001	3	17
UPPER_AERODIGESTIVE_TRACT	ZGRF1 →	+1.061	+0.091	<.001	<.001	3	15
STOMACH	HECTD2 →	+1.780	+0.091	<.001	.001	3	15
BLOOD_Lymphoma	NHLRC2 →	+0.728	+0.067	<.001	<.001	3	15
SOFT_TISSUE	SMC6 →	+1.004	+0.128	<.001	<.001	3	15

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

GO:0140588 vs SLF2 — SOFT_TISSUE

Explore this scatter interactively →