Retrograde neuronal dense core vesicle transport

Across TCGA patient cohorts, RNA activity of the Retrograde neuronal dense core vesicle transport pathway is significantly associated with the protein abundance of multiple proteins, with the GBM cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are PLEKHF2_S16, AKAP13_S2498, and AKAP8_S328, 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 neuronal dense core vesicle transport activity versus PLEKHF2_S16 in GBM (Pearson r = 0.47).

Pathway-associated proteins 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 protein	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
GBM	PLEKHF2_S16 →	+0.482	+0.083	<.001	<.001	3	5
CCRCC	AKAP13_S2498 →	-0.863	-0.042	.004	.009	3	5
HNSC	AKAP8_S328 →	-0.479	-0.074	.001	.006	3	4
GBM	SEMA4D_S833 →	+0.743	+0.100	<.001	.001	3	4
GBM	SRRM2_S2694 →	-0.373	-0.104	<.001	<.001	3	4
GBM	CDC42EP4 →	+0.500	+0.093	<.001	<.001	3	4

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

GO:1990049 vs PLEKHF2_S16 — GBM

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