mRNA transcription

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

The most reproducible pathway-associated genes across cancer lineages are HLA-E, CNOT7, and ICAM1, 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, HLA-E grouped by mRNA transcription-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	HLA-E →	-0.125	-0.073	.009	.002	3	4
BLOOD_Myeloma	CNOT7 →	+0.313	+0.035	.004	.001	2	5
LUNG_SCLC	ICAM1 →	-0.283	-0.083	.003	.002	3	4
CNS	DGKK →	-0.241	-0.072	.008	.002	3	4
CNS	SMARCE1 →	-0.224	-0.058	.005	<.001	3	4
BREAST	BUB1B →	+0.377	+0.079	<.001	.001	3	4

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

HLA-E by mRNA transcription activity — OESOPHAGUS

Explore this box plot interactively →