"Retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum"

Across TCGA patient cohorts, RNA activity of the "Retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum" pathway is significantly associated with the RNA expression of multiple genes, with the PDAC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are PHF14, ARHGEF9, and SEC31A, 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, "Retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum" activity versus PHF14 in PDAC (Pearson r = -0.34).

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
PDAC	PHF14 →	-0.292	-0.234	.002	<.001	3	5
BRCA	ARHGEF9 →	-0.521	-0.189	.004	.005	3	5
BRCA	SEC31A →	+0.387	+0.186	.002	.002	3	5
LSCC	TFAP4 →	-0.562	-0.276	<.001	<.001	3	5
CCRCC	GID4 →	-0.372	-0.285	<.001	<.001	3	5
CCRCC	ZFYVE9 →	-0.274	-0.205	<.001	<.001	3	5

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

GO:0006890 vs PHF14 — PDAC

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