Negative regulation of chromatin organization

Across TCGA patient cohorts, RNA activity of the Negative regulation of chromatin organization pathway is significantly associated with the RNA expression of multiple genes, with the HNSC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are VRK1, THOC1, and SCML2, each associated with the pathway in up to 4 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, Negative regulation of chromatin organization activity versus VRK1 in HNSC (Pearson r = 0.06).

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
HNSC	VRK1 →	+1.091	+0.911	.001	.004	3	4
LSCC	THOC1 →	+0.733	+1.108	<.001	.002	3	4
HNSC	SCML2 →	+0.830	+1.060	.001	.003	3	4
HNSC	ZXDB →	+0.813	+0.962	<.001	.002	3	4
LSCC	G3BP1P1 →	+0.459	+0.821	<.001	<.001	3	4
LSCC	NDC80 →	+0.841	+1.235	<.001	<.001	3	4

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

GO:1905268 vs VRK1 — HNSC

Explore this scatter interactively →