TABLE 5.

Statistical significance of differential expression (either up or down) of proviruses between Tat treatment and vehicle treatment^a

Chromosome	Locus	Name and alternate name(s)	P value		Significance rank	Q value
			Unique	Max
7	7q34	K(OLDAC004979), ERVK-15	1.8742E−63	1.8742E−63	1	1.6868E−61
3	3q12.3	K(II), ERVK-5	7.9669E−68	7.9669E−68	2	3.5851E−66
1	1q21.3	1q21.3	2.1190E−56	2.1190E−56	3	6.3569E−55
4	4p16.1b	K50c	1.8560E−40	1.8560E−40	4	4.1759E−39
1	1q22	K102, K(C1b), K50a, ERVK-7	6.3468E−34	6.3468E−34	5	1.1424E−32
11	11p15.4	K7	8.2763E−25	8.2763E−25	6	1.2414E−23
11	11q12.3	K(OLDAC004127)	8.1670E−20	8.1670E−20	7	1.0500E−18
3	3p12.3	3p12.3	1.4842E−17	1.4842E−17	8	1.6697E−16
19	19q13.12b	K50F	4.7480E−18	4.7480E−18	9	4.7480E−17
8	8q24.3b	K29	1.0238E−14	1.0238E−14	10	9.2144E−14
1	1q23.3	K110, K18, K(C1a), ERVK-18	1.3727E−12	1.3727E−12	11	1.1231E−11
14	14q11.2	K(OLDAL136419), K71	6.7613E−11	6.7613E−11	12	5.0710E−10
9	9q34.11	K31	1.6819E−10	1.6819E−10	13	1.1644E−09
7	7q22.2	ERVK-14	2.1008E−10	2.1008E−10	14	1.3505E−09
8	8p23.1d	KOLD130352	2.1788E−09	2.1788E−09	15	1.3073E−08
19	19q13.12a	19q13.12a	7.9436E−09	7.9436E−09	16	4.4683E−08
4	4q32.1	4q32.1	1.6633E−07	1.6633E−07	17	8.8058E−07
8	8p23.1c	8p23.1c	2.9556E−07	2.9556E−07	18	1.4778E−06
22	22q11.21	K101, K(C22), ERVK-24	4.7333E−07	4.7333E−07	19	2.2421E−06
8	8q11.1	K70, K43	1.1955E−06	1.1955E−06	20	5.3795E−06
16	16p13.3	K(OLDAC004034)	1.6706E−06	1.6706E−06	21	7.1599E−06
6	6p11.2	K23	2.9726E−06	2.9726E−06	22	1.2161E−05
5	5p12	K8	7.1232E−06	7.1232E−06	23	2.7873E−05
22	22q11.23	K(OLDAP000345), KOLD345	1.0234E−05	1.0234E−05	24	3.8378E−05
10	10p14	K(C11a), K33, ERVK-16	3.9553E−07	3.9553E−07	25	1.4239E−06
8	8p23.1a	K115, ERVK-8	1.8342E−05	1.8342E−05	26	6.3492E−05
17	17p13.1	17p13.1	2.0446E−04	2.0446E−04	27	6.8154E−04
21	21q21.1	K60, ERVK-23	6.0462E−04	6.0462E−04	28	1.9434E−03
19	19p12a	K52	1.7990E−03	1.7990E−03	29	5.5831E−03
1	1p31.1	K4, K116, ERVK-1	2.2897E−03	2.2897E−03	30	6.8692E−03
X	Xq11.1	Xq11.1	2.7634E−03	2.7634E−03	31	8.0228E−03
19	19q11	K(C19), ERVK-19	4.0119E−03	4.0119E−03	32	1.1283E−02
12	12q24.33	K42	6.4178E−03	6.4178E−03	33	1.7503E−02
7	7p22.1b	K108R, ERVK-6, HERV-K (HML-2).HOM	7.1651E−03	7.1651E−03	34	1.8966E−02
6	6q25.1	6q25.1	1.0955E−02	1.0955E−02	35	2.8170E−02
19	19q13.41	19q13.41	1.4918E−02	1.4918E−02	36	3.7295E−02
2	2q21.1	2q21.1	5.9765E−03	5.9765E−03	37	1.4537E−02
19	19q13.42	LTR13	1.6717E−02	1.6717E−02	38	3.9593E−02

^aThe different names shown represent alternative ways to refer to the same virus based on the literature. Tat or vehicle unique RPKM values are the reads that had a single unique genomic alignment, mapping to a particular provirus, not shared with any other known provirus. P values were calculated after a proportions test (R function), taking total and unique reads for each treatment. The maximum P value between those tests was selected and corrected for multiple testing using the false discovery rate, generating Q values. Shown are proviruses with significant differential expression among treatments (Q < 0.05), ordered according to significance rank.