SCAPER

Across TCGA pan-cancer cohorts, SCAPER RNA differs between tumor and matched normal tissue in 10 of 18 cancer types tested, making tumor–normal expression one of SCAPER’s most consistent transcriptional readouts.

The strongest signal is observed in colon adenocarcinoma (COAD), where SCAPER RNA is repressed in tumor relative to normal tissue. In most cancer types SCAPER is over-expressed in tumor, although a few such as COAD and THCA show the opposite, repressed pattern.

COAD, THCA, and BRCA are the cancer types where SCAPER tumor–normal differential expression is most reproducible.

RNA tumor vs normal associations by lineage

Ranked by sampling consensus. Fold-change is the tumor-versus-normal difference in SCAPER RNA (log₂); positive values indicate higher expression in tumor. p-values are from the differential-expression test.

Lineage	Gender	Stage	Fold-change	p	Sampling consensus
COAD	All	II,III,IV	−0.390	<.001	7	view →
THCA	Male	All	−0.505	<.001	6	view →
BRCA	Female	All	−0.430	<.001	6	view →
LUAD	Female	II,III,IV	−0.648	.002	5	view →
UCEC	All	All	−0.942	<.001	4	view →
CHOL	All	All	+0.925	.001	3	view →
LUSC	All	All	−0.276	.001	3	view →
KIRP	Male	All	−0.430	.005	2	view →
LIHC	All	All	+0.286	.002	2	view →
BLCA	Female	III,IV	−0.450	.025	1	view →

Pink = over-expressed in tumor, green = repressed in tumor. Showing the 10 strongest of 10 lineages.

SCAPER–COAD

Open the COAD breakdown →