Nucleolar chromatin organization

Across TCGA cell cohorts, RNA activity of the Nucleolar chromatin organization pathway is significantly associated with the shRNA dependency of multiple genes, with the SKIN cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are DNAJB12, LENG8, and ALDH1A3, 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 box plot shows the strongest association, DNAJB12 grouped by Nucleolar chromatin organization-low versus -high activity in SKIN.

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
SKIN	DNAJB12 →	-0.235	-0.965	.005	.003	3	4
LARGE_INTESTINE	LENG8 →	-0.205	-1.057	.004	.002	3	4
SKIN	ALDH1A3 →	-0.169	-1.259	.001	<.001	3	4
LUNG_SCLC	RLN2 →	+0.172	+1.210	.009	.007	3	4
CNS	TNRC6C →	-0.256	-1.078	.001	.002	3	4
PANCREAS	MS4A1 →	+0.180	+1.019	.008	.008	3	3

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

DNAJB12 by Nucleolar chromatin organization activity — SKIN

Explore this box plot interactively →