Nuclear body organization

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

The most reproducible pathway-associated genes across cancer lineages are NBEAL1, PPARGC1B, and HDAC3, 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, NBEAL1 grouped by Nuclear body organization-low versus -high activity in CNS.

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
CNS	NBEAL1 →	+0.230	+0.179	.002	<.001	3	5
LUNG_NSCLC_LUSC	PPARGC1B →	-0.278	-0.130	.004	.007	3	5
BONE	HDAC3 →	-0.250	-0.085	.002	.004	3	4
SOFT_TISSUE	MRPL15 →	-0.546	-0.071	.008	.003	2	5
SOFT_TISSUE	GIMAP7 →	-0.275	-0.094	<.001	.002	3	4
BREAST	HNRNPL →	+0.299	+0.113	<.001	<.001	3	4

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

NBEAL1 by Nuclear body organization activity — CNS

Explore this box plot interactively →