Negative regulation of chromatin organization

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

The most reproducible pathway-associated genes across cancer lineages are SLC30A4, NSMAF, and ARHGEF38, each associated with the pathway in up to 6 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, SLC30A4 grouped by Negative regulation of chromatin organization-low versus -high activity in OESOPHAGUS.

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
OESOPHAGUS	SLC30A4 →	-0.739	-1.007	.009	.007	2	6
UPPER_AERODIGESTIVE_TRACT	NSMAF →	-1.396	-1.269	<.001	<.001	3	5
BREAST	ARHGEF38 →	+1.302	+0.829	<.001	<.001	3	5
OVARY	IFNGR2 →	-0.753	-0.727	.002	.006	3	5
BREAST	PRR15 →	+2.152	+0.587	<.001	.004	3	5
BREAST	ERBB3 →	+1.938	+0.860	<.001	<.001	3	5

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

SLC30A4 by Negative regulation of chromatin organization activity — OESOPHAGUS

Explore this box plot interactively →