Table 3. Enriched Reactome pathways ranked by FDR.

Pathway	GSS	GLE	ES	NES	PV	FDR	SD
CYCLIN E ASSOCIATED EVENTS DURING G1 S TRANSITION	58	30	0.40	3.49	0.001	0.08	0.12
REGULATION OF ORNITHINE DECARBOXYLASE	47	24	0.42	3.30	0.001	0.07	NA
APOPTOSIS	127	62	0.37	3.06	0.001	0.10	0.12
P53 INDEPENDENT DNA DAMAGE RESPONSE	43	21	0.41	2.99	0.003	0.09	NA
Generic transcription pathway	35	23	0.51	2.98	0.001	0.08	-
SCF BETA TRCP MEDIATED DEGRADATION OF EMI1	48	23	0.39	2.77	0.003	0.12	0.14
VIF MEDIATED DEGRADATION OF APOBEC3G	47	22	0.38	2.67	0.005	0.13	NA
STABILIZATION OF P53	46	21	0.38	2.63	0.005	0.13	NA
SCF SKP2 MEDIATED DEGRADATION OF P27 P21	52	21	0.36	2.59	0.005	0.13	0.07
G1 S TRANSITION	96	37	0.33	2.34	0.011	0.22	0.03
REGULATION OF APC ACTIVATORS BETWEEN G1 S AND EARLY ANAPHASE	71	26	0.33	2.26	0.016	0.23	0.03

In capital letters, pathways that contain KEGG proteasome genes.

Abbreviations: GSS (pathway gene set size); GLE (number of genes in leading edge); ES (Enrichment score), NES (Normalized Enrichment score), PV (p-value), FDR (false discovery rate), SD (p-value of shadow analysis against KEGG proteasome pathway)