Table 2. Expression of viral miRNAs in EAGLE patients with lung adenocarcinoma compared with squamous cell carcinoma.

MiRNA	Unique ID	P-valuea	FDRb	Permutation P-value	GM in ADc	GM in SQd	Fold-change AD/SQe
hcmv-miR-UL70-3p	MIMAT0003343	1.00E−07	1.60E−06	<1e−07	0.99	0.68	1.46
ebv-mir-BART8 f	MIMAT0003418	1.00E−07	1.60E−06	<1e−07	1.04	1.23	0.85
kshv-miR-K12-3	MIMAT0002193	2.00E−07	2.10E−06	<1e−07	1.62	1.18	1.37
ebv-mir-BART4	MIMAT0003412	7.00E−07	5.60E−06	<1e−07	0.47	0.35	1.35
ebv-miR-BART1	MIMAT0000999	1.20E−06	7.70E−06	<1e−07	0.22	0.16	1.39
ebv-miR-BART6-3p	MIMAT0003415	4.43E−05	2.36E−04	<1e−07	1.14	0.91	1.25
ebv-miR-BART20-5p	MIMAT0003719	1.04E−04	4.74E−04	1.00E−04	1.03	1.20	0.86
ebv-mir-BART3 f	MIMAT0003410	4.47E−04	1.79E−03	5.00E−04	0.07	0.05	1.50
ebv-mir-BART16	MIMAT0003714	5.91E−04	2.10E−03	3.00E−04	1.09	1.19	0.91
ebv-mir-BART13	MIMAT0003424	7.35E−04	2.35E−03	<1e−07	1.20	1.03	1.17
kshv-miR-K12-8	MIMAT0002186	1.07E−03	3.12E−03	9.00E−04	1.57	1.29	1.21
sv40-miR-S1-5p	MIMAT0003344	1.25E−03	3.34E−03	1.40E−03	1.20	1.06	1.13
kshv-miR-K12-10a	MIMAT0002179	1.58E−03	3.89E−03	2.30E−03	0.82	0.63	1.30
kshv-miR-K12-10b	MIMAT0002180	2.01E−03	4.44E−03	2.10E−03	0.85	0.69	1.22
ebv-miR-BHRF1-3	MIMAT0000998	2.08E−03	4.44E−03	2.50E−03	0.15	0.12	1.29
kshv-miR-K12-1	MIMAT0002182	4.10E−03	7.73E−03	3.40E−03	1.04	1.13	0.92
hcmv-miR-US5-1	MIMAT0001579	4.11E−03	7.73E−03	3.60E−03	0.70	0.63	1.12
ebv-mir-BART14	MIMAT0003426	0.02	0.04	0.02	0.89	0.73	1.21
ebv-mir-BART3	MIMAT0003411	0.05	0.08	0.05	0.36	0.31	1.19
ebv-miR-BART2	MIMAT0001000	0.09	0.15	0.09	0.03	0.03	1.23
kshv-miR-K12-6-5p	MIMAT0002188	0.12	0.18	0.12	1.74	1.57	1.10
kshv-miR-K12-5	MIMAT0002190	0.13	0.18	0.12	1.16	1.22	0.95
hcmv-miR-US25-2-5p	MIMAT0001582	0.15	0.21	0.15	1.09	1.05	1.05
ebv-mir-BART12	MIMAT0003423	0.16	0.21	0.16	1.06	1.16	0.92
ebv-miR-BART17-5p	MIMAT0003715	0.22	0.28	0.22	1.27	1.23	1.04
ebv-mir-BART5	MIMAT0003413	0.23	0.28	0.23	2.91	2.67	1.09
hcmv-miR-UL112-1	MIMAT0001577	0.24	0.28	0.24	1.36	1.31	1.04
hcmv-miR-UL36-1	MIMAT0001576	0.27	0.31	0.27	1.08	1.12	0.96
hcmv-miR-US4	MIMAT0003341	0.35	0.38	0.35	1.07	1.09	0.98
ebv-mir-BART10	MIMAT0003420	0.36	0.38	0.35	1.18	1.11	1.06
kshv-miR-K12-2	MIMAT0002183	0.57	0.59	0.57	0.90	0.94	0.96
kshv-mir-K12-12	MIMAT0003712	0.87	0.87	0.87	1.18	1.17	1.01

Abbreviations: EAGLE=Environment And Genetics in Lung cancer Etiology; miRNA=microRNA; FDR=false discovery rate; GM=geometric mean; AD=adenocarcinoma; SQ=squamous cell carcinoma.

MiRNAs are sorted by the parametric P-value from the univariate test.

^aParametric P-value.

^bFDR calculated by the method of Benjamini and Hochberg (1995).

^cGeometric mean of miRNA expression in AD samples compared with the Epstein–Barr virus (EBV) reference sample.

^dGeometric mean of miRNA expression in SQ samples compared with the EBV reference sample.

^eRatio of geometric mean ratios of miRNA expression in adenocarcinoma/squamous cell carcinoma.

^fDenotes the antisense miRNA. Note: bold values indicate EBV miRNAs.