Table 1. Pathways identified by MiRSEA with FDR < 0.01 in the HCC dataset.

Pathway	Size of miRNAa	NmiRES	FDR	Character
Sphingolipid metabolism	10	2.17	< 0.001	Down-regulated
Calcium signaling pathway	45	2.02	< 0.001	Down-regulated
Cell adhesion molecules (CAMs)	32	2.01	< 0.001	Down-regulated
Glycerolipid metabolism	13	1.94	< 0.001	Down-regulated
Non-homologous end-joining	12	1.92	< 0.001	Down-regulated
Drug metabolism - other enzymes	11	1.90	< 0.001	Down-regulated
Prion diseases	27	1.90	< 0.001	Down-regulated
Cysteine and methionine metabolism	25	1.89	< 0.001	Down-regulated
Focal adhesion	124	1.83	< 0.001	Down-regulated
Adherens junction	78	1.83	< 0.001	Down-regulated
Pyruvate metabolism	17	1.78	< 0.001	Down-regulated
MAPK signaling pathway	106	1.75	< 0.001	Down-regulated
Bladder cancer	100	1.71	< 0.001	Down-regulated
Pathways in cancer	177	1.64	< 0.001	Down-regulated
Starch and sucrose metabolism	17	1.79	0.005	Down-regulated
Type II diabetes mellitus	37	1.76	0.005	Down-regulated
Glioma	103	1.70	0.005	Down-regulated
Endometrial cancer	90	1.66	0.005	Down-regulated
p53 signaling pathway	102	1.60	0.005	Down-regulated
Prostate cancer	133	1.57	0.005	Down-regulated
Viral myocarditis	56	1.78	0.009	Down-regulated
Colorectal cancer	96	1.56	0.009	Down-regulated
Ribosome	37	−1.91	< 0.001	Up-regulated
Chemokine signaling pathway	77	−1.90	< 0.001	Up-regulated
Huntingtons disease	59	−1.83	< 0.001	Up-regulated
Tight junction	76	−1.69	< 0.001	Up-regulated
Melanogenesis	49	−1.65	< 0.001	Up-regulated
Phosphatidylinositol signaling system	37	−1.61	< 0.001	Up-regulated
Leishmania infection	36	−1.71	0.0059	Up-regulated
Renal cell carcinoma	78	−1.69	0.0059	Up-regulated
Antigen processing and presentation	31	−1.80	0.009	Up-regulated
Fructose and mannose metabolism	21	−1.73	0.009	Up-regulated
Pentose phosphate pathway	22	−1.64	0.009	Up-regulated

^athe number of miRNAs in the converted pathway.