DNA replication

Across TCGA cell cohorts, RNA activity of the DNA replication pathway is significantly associated with the shRNA dependency of multiple genes, with the SOFT_TISSUE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are GRK3, CDC45, and RFC4, each associated with the pathway in up to 8 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, GRK3 grouped by DNA replication-low versus -high activity in SOFT_TISSUE.

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
SOFT_TISSUE	GRK3 →	+0.238	+0.133	.002	.001	3	8
LIVER	CDC45 →	-0.188	-0.239	.007	.003	2	8
KIDNEY	RFC4 →	-0.348	-0.175	.003	.003	3	7
OVARY	IFNA10 →	+0.194	+0.169	<.001	.005	3	7
BLOOD_Leukemia	HTR5A →	+0.310	+0.137	<.001	<.001	3	6
SOFT_TISSUE	COL11A1 →	+0.379	+0.186	.004	<.001	3	6

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

GRK3 by DNA replication activity — SOFT_TISSUE

Explore this box plot interactively →