Retinal cone cell differentiation

Across TCGA patient cohorts, RNA activity of the Retinal cone cell differentiation pathway is significantly associated with the protein abundance of multiple proteins, with the BRCA cohort showing a particularly strong set of associations.

The most reproducible pathway-associated proteins across cancer lineages are CLIC2, NCOA7, and SYTL3_S243, 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, Retinal cone cell differentiation activity versus CLIC2 in BRCA (Pearson r = -0.05).

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
BRCA	CLIC2 →	-0.525	-0.049	<.001	.001	3	4
GBM	NCOA7 →	-0.266	-0.071	.009	<.001	3	4
LUAD	SYTL3_S243 →	-0.895	-0.059	<.001	<.001	3	4
CCRCC	EIF4EBP3_T56 →	+0.890	+0.067	<.001	<.001	3	3
CCRCC	HNRNPK_S379 →	-0.193	-0.032	.007	.008	3	3
CCRCC	ICE1_S516 →	-0.346	-0.055	.002	<.001	3	3

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

GO:0042670 vs CLIC2 — BRCA

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