TABLE 5.

Primers and probes used for gene expression qPCR^a

Assay	Species or virus	Primer/probe	Sequence (5′→3′)	RefSeq no.	Detect all variants?	Exon location	IDT assay ID	Source	Amplicon size (bp)	Efficiency
										%	r2
TBP	Homo sapiens	F	CAGTGAATCTTGGTTGTAAACTTGA	NM_003194	Yes	4–5	Hs.PT.58. 20792004	IDT	113	99.49	0.9975
		R	TCGTGGCTCTCTTATCCTCAT
		P	CGCAGCAAACCGCTTGGGATTAT
RPL27A	Homo sapiens	F	AACATGCCATCCAGACTGAG	NM_000990	Yes	1–4	Hs.PT.58. 38463594	IDT	148	98.28	0.9973
		R	GGTATTTGTCGAAGTTGATCCG
		P	CAGACCACCAGCATTACCGCG
UBE2D2	Homo sapiens	F	GTACTCTTGTCCATCTGTTCTCTG	NM_181838	Yes	6–8	Hs.PT.58. 622887	IDT	120	99.89	0.9989
		R	CCATTCCCGAGCTATTCTGTT
		P	CCGAGCAATCTCAGGCACTAAAGGA
HPRT1	Homo sapiens	F	TTGTTGTAGGATATGCCCTTGA	NM_000194	Yes	8–9	Hs.PT.58v. 45621572	IDT	149	100.71	0.9959
		R	GCGATGTCAATAGGACTCCAG
		P	AGCCTAAGATGAGAGTTCAAGTTGAGTTTGG
YWHAZ	Homo sapiens	F	TCCCTCAAACCTTGCTTCTAG	NM_003406	Yes	1–2	Hs.PT.39a. 22214858	IDT	135	98.00	0.9988
		R	TCAGTTACAGACTTCATGCAGG
		P	AGTTTGGCCTTCTGAACCAGCTCATT
GAPDH	Homo sapiens	F	ACATCGCTCAGACACCATG	NM_002046	Yes	2–3	Hs.PT.39a. 22214836	IDT	143	100.72	0.9943
		R	TGTAGTTGAGGTCAATGAAGGG
		P	AAGGTCGGAGTCAACGGATTTGGTC
IFI6	Homo sapiens	F	CTGCTGTGCCCATCTATCAG	NM_002038	Yes	1–2	Hs.PT.58. 4407609	IDT	129	99.41	0.9970
		R	GTAGCACAAGAAAAGCGATACC
		P	CCAAGGTCTAGTGACGGAGCCC
HIV GAG	HIV-1	F	TACTGACGCTCTCGCACC	K03455.1	NA	NA	NA	IDT	127	102.20	0.9890
		R	TCTCGACGCAGGACTCG
		P	CTCTCTCCTTCTAGCCTCCGCTAGT

^aDetailed information on primers and probes used in this study. F, forward primer; R, reverse primer; P, probe; ID identifier; NA, not available.