Retrotransposon silencing by heterochromatin formation

Across TCGA cell cohorts, RNA activity of the Retrotransposon silencing by heterochromatin formation pathway is significantly associated with the RNA expression of multiple genes, with the BLOOD_Leukemia cohort showing a particularly strong set of associations.

The most reproducible pathway-associated genes across cancer lineages are PROK2, ZNF185, and PAPSS2, 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, Retrotransposon silencing by heterochromatin formation activity versus PROK2 in BLOOD_Leukemia (Pearson r = -0.34).

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_Leukemia	PROK2 →	-1.673	-0.648	.003	.003	3	4
LIVER	ZNF185 →	+1.974	+1.224	.005	.001	3	4
OVARY	PAPSS2 →	-2.363	-1.311	.001	<.001	3	3
BLOOD_Leukemia	TAF6 →	+0.496	+0.759	.002	<.001	3	3
BLOOD_Leukemia	EXOC2 →	+0.476	+0.692	.005	.002	3	3
BONE	SRM →	-1.084	-1.540	.005	<.001	3	3

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

GO:0141005 vs PROK2 — BLOOD_Leukemia

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