L-cystine transport

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

The most reproducible pathway-associated genes across cancer lineages are NPAS4, PPP3CB, and SEZ6L2, each associated with the pathway in up to 4 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, NPAS4 grouped by L-cystine transport-low versus -high activity in LIVER.

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
LIVER	NPAS4 →	-0.231	-0.205	<.001	<.001	3	4
LUNG_SCLC	PPP3CB →	+0.172	+1.407	.006	<.001	3	3
LUNG_SCLC	SEZ6L2 →	-0.329	-1.190	.003	.005	2	4
PANCREAS	PRPF3 →	-0.419	-1.164	<.001	<.001	3	3
BLOOD_Myeloma	PCDHGB1 →	+0.200	+0.132	.001	.003	3	3
LIVER	FN1 →	-0.265	-0.229	.009	.001	2	4

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

NPAS4 by L-cystine transport activity — LIVER

Explore this box plot interactively →