Positive regulation of early endosome to late endosome transport

Across TCGA cell cohorts, RNA activity of the Positive regulation of early endosome to late endosome transport pathway is significantly associated with the RNA expression of multiple genes, with the BONE cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are SMIM4, RDX, and APOBEC3B, 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 scatter plot shows the strongest association, Positive regulation of early endosome to late endosome transport activity versus SMIM4 in BONE (Pearson r = -0.81).

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
BONE	SMIM4 →	-1.682	-0.349	.009	.002	3	5
OESOPHAGUS	RDX →	+2.357	+0.286	.006	.006	3	5
BONE	APOBEC3B →	-5.340	-0.401	<.001	<.001	3	5
LARGE_INTESTINE	PRR5 →	-1.100	-0.291	<.001	<.001	3	4
STOMACH	SLC43A1 →	-3.365	-0.268	<.001	.002	3	4
BLOOD_Myeloma	TRPS1 →	-1.780	-0.161	.002	.002	3	4

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

GO:2000643 vs SMIM4 — BONE

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