L-serine metabolic process

Across TCGA cell cohorts, RNA activity of the L-serine metabolic process pathway is significantly associated with the shRNA dependency of multiple genes, with the BLOOD_Lymphoma cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are PSAT1, SDSL, and PSPH, each associated with the pathway in up to 7 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 box plot shows the strongest association, PSAT1 grouped by L-serine metabolic process-low versus -high activity in BLOOD_Lymphoma.

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
BLOOD_Lymphoma	PSAT1 →	-0.429	-1.673	<.001	<.001	3	7
BLOOD_Leukemia	SDSL →	-0.375	-1.236	.009	.001	3	7
BREAST	PSPH →	-0.222	-0.623	<.001	<.001	3	6
CNS	SHMT2 →	-0.212	-0.916	.002	.003	3	6
OVARY	PHGDH →	-0.174	-0.630	<.001	.009	2	6
BREAST	PSMC3 →	+0.388	+0.735	.003	.004	3	4

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

PSAT1 by L-serine metabolic process activity — BLOOD_Lymphoma

Explore this box plot interactively →