Table 2.

The top 25 microRNAs differentially expressed in high-risk HPV-associated penile squamous cell carcinoma compared to head and neck squamous cell carcinoma

miRNAs	PSCC (this study) (22 tumors and 5 non-tumors)							HNSC (TCGA) (497 tumors and 44 normal)
	Cytoband	Start-End (pb)	HPVis (genotype)*	MiRNA Expression	Log2FC	p-value	Adj.-p	MiRNA Expression	Log2FC	p-value	Adj.-p
let-7a-5p	9q22.32	96,938,234-96,938,325	yes, (16, 18)	Upregulated	2.2266	0.0019	0.0044	Downregulated	0.79	<0.0001	0.0003
miR-130a-3p	11q12.1	57,641,198-57,641,286	yes, (16)	Upregulated	1.1603	0.0008	0.0024	Upregulated	1.86	<0.0001	<0.0001
miR-142-3p	17q22	58,331,222-58,331,327	yes, (16)	Upregulated	1.4576	0.0054	0.0089	Upregulated	2.30	<0.0001	<0.0001
miR-15b-5p	3q25.33	160,404,588-160,404,685	yes, (16)	Upregulated	1.6509	<0.0001	0.0006	Upregulated	1.96	<0.0001	<0.0001
miR-16-5p	13q14.2	50,623,109-50,623,197	yes, (16)	Upregulated	1.2512	0.0008	0.0024	Upregulated	1.60	<0.0001	<0.0001
miR-200c-3p	12p13.31	6,963,694-6,963,771	no	Upregulated	1.2541	0.0023	0.0049	Upregulated	1.51	<0.0001	0.0013
miR-205-5p	1q32.2	209,428,820-209,432,384	yes, (16, 18)	Upregulated	1.4610	0.0013	0.0035	Upregulated	2.35	<0.0001	<0.0001
miR-21-5p	17q23.1	59,841,262-59,841,342	yes, (16, 18)	Upregulated	1.4629	0.0004	0.0016	Upregulated	2.67	<0.0001	<0.0001
miR-223-3p	Xq12	66,018,870-66,018,979	no	Upregulated	2.0222	0.0028	0.0056	Upregulated	1.26	0.059	0.17
miR-22-3p	17p13.3	1,617,197-1,617,281	yes, (16, 18)	Upregulated	1.0605	0.0018	0.0043	Upregulated	0.93	0.047	0.83
miR-25-3p	7q22.1	100,093,560-100,093,643	yes, (16)	Upregulated	1.5448	0.0001	0.0008	Upregulated	1.79	<0.0001	<0.0001
miR-31-5p	9p21.3	21,512,113-21,512,191	yes, (18)	Upregulated	2.0012	0.0006	0.0020	Upregulated	6.15	<0.0001	<0.0001
miR-93-5p	7q22.1	99,691,391-99,691,470	yes, (16)	Upregulated	1.0525	0.0016	0.0040	Upregulated	2.79	<0.0001	<0.0001
miR-1206	8q24.21	129,021,144-129,021,202	yes, (16, 18, 45)	Downregulated	-3.0310	<0.0001	0.0005	IE	1.07	0.77	0.82
miR-144-3p	17q11.2	27,188,551-27,188,636	yes, (16)	Downregulated	-2.9494	<0.0001	0.0006	Downregulated	0.37	<0.0001	<0.0001
miR-190b	1q21.3	154,193,662-154,193,747	yes, (16, 18)	Downregulated	-3.0044	<0.0001	0.0006	Downregulated	0.49	0.015	0.0550
miR-376b-3p	14q32.31	101,040,436-101,040,535	yes, (16)	Downregulated	-2.9871	<0.0001	0.0005	Downregulated	0.74	0.0081	0.033
miR-381-5p	14q32.31	101,045,918-101,045,996	yes, (16)	Downregulated	-2.9859	<0.0001	0.0006	Downregulated	0.18	<0.0001	0.0002
miR-433-3p	14q32.2	100,881,886-100,881,978	yes, (16)	Downregulated	-2.9974	<0.0001	0.0006	Downregulated	0.45	<0.0001	<0.0001
miR-495-3p	14q32.31	101,033,755-101,033,836	yes, (16)	Downregulated	-3.1037	<0.0001	0.0007	Downregulated	0.36	<0.0001	<0.0001
miR-508-3p	Xq27.3	146,318,431-146,318,545	yes, (16)	Downregulated	-2.9449	<0.0001	0.0006	Downregulated	1.80	<0.0001	0.0045
miR-509-3-5p	Xq27.3	146,341,170-146,341,244	yes, (16)	Downregulated	-2.9414	<0.0001	0.0006	Downregulated	0.34	<0.0001	0.0025
miR-509-3p	Xq27.3	147,260,532-147,260,625	yes, (16)	Downregulated	-3.0481	<0.0001	0.0006	Upregulated	4.15	0.097	0.26
miR-544a	14q32.31	101,048,658-101,048,748	yes, (16)	Downregulated	-3.0781	<0.0001	0.0006	IE	1.01	0.58	0.82
miR-661	8q24.3	145,019,359-145,019,447	yes, (16, 18)	Downregulated	-3.1792	<0.0001	0.0006	IE	1.26	0.55	0.82

^*Data obtained from HPVBase [27] (accessed on April 12, 2022) and VISDB [28] we systematically collected and manually curated all VISs reported in the literature and publicly available data resources to construct the Viral Integration Site DataBase (VISDB), https://bioinfo.uth.edu/VISDB (https://bioinfo.uth.edu/VISDB/index.php/homepage) (accessed on Apr 12, 2022); miRNAs = microRNAs; IE = Insignificant expression; PSCC = Penile Squamous Cell Carcinomas; HPVis = Human Papilloma Virus Integration Site; HNSC = Head Neck Squamous Cell Carcinoma; TCGA = The Cancer Genome Atlas.