Establishment of protein localization to chromosome

Across TCGA patient cohorts, RNA activity of the Establishment of protein localization to chromosome pathway is significantly associated with the protein abundance of multiple proteins, with the LSCC cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are MSH6, DHX9, and NXF1, each associated with the pathway in up to 8 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, Establishment of protein localization to chromosome activity versus MSH6 in LSCC (Pearson r = 0.35).

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
LSCC	MSH6 →	+0.574	+0.037	<.001	<.001	3	8
HNSC	DHX9 →	+0.286	+0.078	<.001	<.001	3	7
GBM	NXF1 →	+0.338	+0.044	<.001	.002	3	7
LSCC	SNRNP200 →	+0.242	+0.042	<.001	<.001	3	7
BRCA	DDX50 →	+0.306	+0.025	<.001	.002	3	7
LSCC	TRIM28 →	+0.219	+0.032	<.001	<.001	3	7

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

GO:0070199 vs MSH6 — LSCC

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