Synaptonemal complex organization

Across TCGA cell cohorts, RNA activity of the Synaptonemal complex organization 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 COMMD9, GPR132, and ZNF781, 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, COMMD9 grouped by Synaptonemal complex organization-low versus -high activity in BREAST.

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	COMMD9 →	-0.926	-0.416	.004	.007	3	4
BLOOD_Lymphoma	GPR132 →	-3.206	-0.400	<.001	.003	3	3
BLOOD_Lymphoma	ZNF781 →	+2.362	+0.546	<.001	<.001	3	3
BLOOD_Lymphoma	TRAM2 →	+3.020	+0.419	.008	.009	3	3
BONE	RPL22L1 →	+1.748	+1.176	.003	.009	3	3
SOFT_TISSUE	TSR1 →	+0.594	+0.279	.009	.001	3	3

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

COMMD9 by Synaptonemal complex organization activity — BREAST

Explore this box plot interactively →