Retrotransposon silencing by heterochromatin formation

Across TCGA patient cohorts, RNA activity of the Retrotransposon silencing by heterochromatin formation pathway is significantly associated with the protein abundance of multiple proteins, with the GBM cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are RNMT, SH3BGRL, and RRM2, each associated with the pathway in up to 6 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, Retrotransposon silencing by heterochromatin formation activity versus RNMT in GBM (Pearson r = 0.15).

Pathway-associated proteins 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 protein	X-score	Y-score	p(X)	p(Y)	Sampling consensus	Lineage consensus
GBM	RNMT →	+0.188	+0.033	.009	.007	3	6
BRCA	SH3BGRL →	-0.380	-0.070	.007	.006	3	6
LUAD	RRM2 →	+0.582	+0.071	<.001	<.001	3	6
BRCA	CHAF1B_S410 →	+0.762	+0.124	<.001	<.001	3	6
CCRCC	GUCY1B1 →	-0.339	-0.125	<.001	<.001	3	6
LSCC	RFC2 →	+0.379	+0.075	<.001	.004	3	5

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

GO:0141005 vs RNMT — GBM

Explore this scatter interactively →