Phosphatidylcholine metabolic process

Across TCGA patient cohorts, RNA activity of the Phosphatidylcholine metabolic process pathway is significantly associated with the RNA expression of multiple genes, with the GBM cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are HDAC2, DSCC1, and TAF4, 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, Phosphatidylcholine metabolic process activity versus HDAC2 in GBM (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
GBM	HDAC2 →	-0.495	-0.178	.001	.001	3	5
LUAD	DSCC1 →	-0.587	-0.172	.002	<.001	3	5
COAD	TAF4 →	-0.750	-0.203	<.001	<.001	3	5
LUAD	SRSF12 →	-0.400	-0.197	.006	.002	3	4
PDAC	HMGN2P28 →	-0.370	-0.142	.002	.001	3	4
BRCA	GNPNAT1 →	-0.539	-0.197	.004	.006	3	4

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

GO:0046470 vs HDAC2 — GBM

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