Table 2.

Genes Analyzed with TaqMan qPCR

Gene	TaqMan qPCR primers/probes
HLA-A	Fwd: 5′-CTGAGATGGGAGCTGTCTTC-3′
	Rev: 5′-CTATCTGAGCTCTTCCTCCT-3′
	P: 5′-FAM-GTAAAGTGTGAGACAGCTGCCTTG-TAMRA-3′
HLA-B	Fwd: 5′-CTGAGATGGGAGCCGTCTT-3′
	Rev: 5′-CTCCTTTTCCACCTGAACTC-3′
	P: 5′-FAM-GAGCTTGAAAAGCCTGAGAGAGC-TAMRA-3′
HLA-C	Fwd: 5′-GAGCTGGGAGCCATCTTCC-3′
	Rev: 5′-CTGTTGCTGCACGCAGCCT-3′
	P: 5′-FAM-CCATCATGGGCATCGTTGCTGG-TAMRA-3′
HLA-E	Fwd: 5′-GTCACCCTGAGATGGAAGC-3′
	Rev: 5′-CTTGGATCTGTGGTCTCTGG-3′
	P: 5′-FAM-CCATCGTGGGCATCATTGCTGG-TAMRA-3′
HLA-F	Fwd: 5′-CCTCCAAAGGCACACGTTG-3′
	Rev: 5′-GATAGAAACAGAGGGAGCTAC-3′
	P: 5′-FAM-CAAGACACACGTGACCCACCAC-TAMRA-3′
HLA-G	Fwd: 5′-CCACAGATACCTGGAGAACG-3′
	Rev: 5′-GATCATACTGACCTGGCAGC-3′
	P: 5′-FAM-CAAGACACACGTGACCCACCAC-TAMRA-3′
IFNGR1	Fwd: 5′-CATCACGTCATACCAGCCATTT-3′
	Rev: 5′-CTGGATTGTCTTCGGTATGCAT-3′
	P: 5′-FAM-GGTCTGTGAAGAGCCGTTGTCTC-TAMRA-3′
IFNGR2	Fwd: 5′-CCACCAAGCATCCCATTACA-3′
	Rev: 5′-CCTTGGACAAGGACAGCTC-3′
	P: 5′-GACCCAACTCAGCCCATCTTAGA-3′
STAT1	Fwd: 5′-GAGCAGGTTCACCAGCTTTATG-3′
	Rev: 5′-GAAAACGGATGGTGGCAAATG-3′
	P: 5′-FAM-CAAGACTGGGAGCACGCTGCCAA-TAMRA-3′
CIITA	Fwd: 5′-ACGCCCTGCTGGGTCC-3′
	Rev: 5′-AACTCCATGGTGGCACACTG-3′
	P: 5′-FAM-ACCTGTCAGAGCCCCAAGGCAGC-TAMRA-3′
PSMB8	Fwd: 5′-GTCCTACATTAGTGCCTTACG-3′
	Rev: 5′-GATAGTACAGCCTGCATTCC-3′
	P: 5′-FAM-GCTGTGCAGACTGTCAGTAC-TAMRA-3′
HLA-DRA	Fwd: 5′-GGCTTGGATGAGCCTCTTC-3′
	Rev: 5′-GGACCATCTTCATCATCAAGG-3′
	P: 5′-FAM-CAAGCACTGGGAGTTTGATGCTC-TAMRA-3′
HLA-DRB	Fwd: 5′-GGAGAGGTTTACACCTGCC-3′
	Rev: 5′-GCAAGATGCTGAGTGGAGTC-3′
	P: 5′-FAM-GAATGGAGAGCACGGTCTGAATC-TAMRA-3′
HLA-DPA	Fwd: 5′-CACAAGTTCCATTACCTGACC-3′
	Rev: 5′-GAGCAAGAAAGTTCAACGAGG-3′
	P: 5′-CTTCTATGACTGCAGGGTGGAGC-3′
HLA-DPB	Fwd: 5′-GGAGTGGAAGGCACAGTCT-3′
	Rev: 5′-GAGCAAGAAAGTTCAACGAGG-3′
	P: 5′-CGGAGTAAGACATTGACGGGAGC-3′
HLA-DQA	Fwd: 5′-CACCAAGGGCCATTGTGAAT-3′
	Rev: 5′-CCAGAGAATAGTGCTAGGTC-3′
	P: 5′-FAM-CCATCTACAGGAGCAGAAGAATGG-TAMRA-3′
HLA-DQB	Fwd: 5′-CCAGAGCAAGATGCTGAGTG-3′
	Rev: 5′-GTGCAGAAGCCCTTTCTGAC-3′
	P: 5′-FAM-GGCTGGGCCTTATCATCCGTCAA-TAMRA-3′
CCL5	Applied Biosystems assay ID Hs00174575_m1
STAT3	Applied Biosystems assay ID Hs01047580_m1
PPIA	Applied Biosystems no. 4333763
GAPDH	Applied Biosystems no. 4333764

Classic and nonclassic HLA-I genes were analyzed, as were the major HLA-II genes DR, DP, and DQ. Moreover, we examined the expression of genes downstream of IFN-γ. Forward and reverse primers, and FAM/TAMRA-labeled probes, are listed. All primer/probe sets were designed by us, with the exceptions of IFNGR1³³ and CIITA.³⁴

Fwd, forward; GAPDH, glyceraldehyde-3-phosphate dehydrogenase; P, probe; PPIA, cyclophilin; Rev, reverse.