mRNA transport

Across TCGA cell cohorts, RNA activity of the mRNA transport 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 FRG1CP, KCTD8, and ITGB4, each associated with the pathway in up to 7 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, FRG1CP grouped by mRNA transport-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	FRG1CP →	+0.240	+0.195	.001	.001	3	7
BLOOD_Leukemia	KCTD8 →	-0.136	-0.200	.001	.002	3	6
OESOPHAGUS	ITGB4 →	+0.336	+0.136	.005	.003	3	6
LUNG_SCLC	MAN1C1 →	+0.212	+0.120	.004	.006	3	6
KIDNEY	COL4A2 →	+0.172	+0.193	.006	.004	3	6
SKIN	LINC00523 →	+0.218	+0.192	.007	.005	3	5

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

FRG1CP by mRNA transport activity — CNS

Explore this box plot interactively →