Regulation of transcription elongation by RNA polymerase II

Across TCGA pan-cancer cohorts, RNA activity of the Regulation of transcription elongation by RNA polymerase II pathway differs between tumor and matched normal tissue in 10 of the 18 cancer types tested.

The strongest signal is observed in head and neck squamous cell carcinoma (HNSC), where pathway activity is higher in tumor tissue than in matched normal tissue. In most cancer types, this pathway shows higher activity in tumors, although a few cancer types, such as KICH and THCA, show the opposite pattern, with lower activity in tumor tissue.

HNSC, LIHC, and LUAD show the most reproducible tumor–normal differences in pathway activity.

Tumor vs normal pathway activity by lineage

Ranked by sampling consensus. Activity change represents the tumor-versus-normal difference in pathway activity on a log₂ scale. Positive values indicate higher pathway activity in tumor tissue. The reported p-values are derived from the corresponding differential activity tests.

Lineage	Gender	Stage	Activity change	p	Sampling consensus
HNSC	All	III,IV	+0.032	<.001	11	view →
LIHC	Female	II,III,IV	+0.048	<.001	9	view →
LUAD	Male	All	+0.035	<.001	8	view →
KICH	Female	All	−0.052	<.001	7	view →
LUSC	All	All	+0.031	<.001	5	view →
BLCA	All	All	+0.027	.025	5	view →
THCA	Female	All	−0.025	<.001	5	view →
COAD	Male	All	+0.014	.015	5	view →
CHOL	Male	All	+0.094	<.001	3	view →
READ	Female	All	+0.018	.003	1	view →

Pink = more active in tumor, green = less active in tumor. Showing the 10 strongest of 10 lineages.

GO:0034243–HNSC

Open the HNSC breakdown →