Positive regulation of MHC class II biosynthetic process

Across TCGA cell cohorts, RNA activity of the Positive regulation of MHC class II biosynthetic process pathway is significantly associated with the RNA expression of multiple genes, with the BREAST cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are NUP42, STN1, and SMARCD2, 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 scatter plot shows the strongest association, Positive regulation of MHC class II biosynthetic process activity versus NUP42 in BREAST (Pearson r = 0.94).

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
BREAST	NUP42 →	+1.759	+0.239	.003	.006	3	3
BLOOD_Lymphoma	STN1 →	-1.327	-0.455	<.001	<.001	3	3
LUNG_SCLC	SMARCD2 →	+0.726	+0.419	.003	.007	3	3
BLOOD_Leukemia	SLC12A9 →	+1.072	+0.998	.006	.003	2	4
BLOOD_Leukemia	IER5L →	+1.173	+1.257	.001	.001	3	3
BLOOD_Leukemia	GMIP →	+0.826	+0.840	.001	.006	3	2

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

GO:0045348 vs NUP42 — BREAST

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