tRNA modification

Across TCGA patient cohorts, RNA activity of the tRNA modification pathway is significantly associated with the RNA expression of multiple genes, with the LSCC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are SENCR, SLC34A2, and ZNF540, each associated with the pathway in up to 6 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 scatter plot shows the strongest association, tRNA modification activity versus SENCR in LSCC (Pearson r = -0.28).

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
LSCC	SENCR →	-0.509	-0.148	.001	.006	3	5
HNSC	SLC34A2 →	-1.121	-0.168	.004	<.001	3	4
HNSC	ZNF540 →	-0.467	-0.149	.008	.003	3	4
UCEC	TONSL →	+0.685	+0.168	<.001	<.001	3	4
GBM	UBE2QL1 →	-0.776	-0.168	.005	<.001	3	4
OV	NGF-AS1 →	-0.152	-0.206	.006	.003	3	4

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

GO:0006400 vs SENCR — LSCC

Explore this scatter interactively →