Table 1.
Primers and Probes Sequences Used for TaqMan and SYBRgreen qPCR
| Target | Sequence |
|---|---|
| cccDNA_for | CCGTGTGCACTTCGCTTCA |
| cccDNA_rev | GCACAGCTTGGAGGCTTGA |
| cccDNA_probe | [6FAM]CATGGAGACCACCGTGAACGCCC[BBQ] |
| 3.5-kb RNA_for | GGAGTGTGGATTCGCACTCCT |
| 3.5-kb RNA_rev | AGATTGAGATCTTCTGCGAC |
| 3.5-kb RNA_probe | [6FAM]AGGCAGGTCCCCTAGAAGAAGAACTCC[BBQ] |
| HIRA_for | GGCCTCGGAAGGACTCTC |
| HIRA_rev | AGACAGACACATGGCCTCCT |
| NTCP_for | GAAGGACAAGGTGCCCTATAAA |
| NTCP_rev | GGATTTGAGGACGATCCCTATG |
| EXO1_for | TGAGGAAGTATAAAGGGCAGGT |
| EXO1_rev | AGTTTTTCAGCACAAGCAATAGC |
| TDP2_for | TGGAGTTTGCCTCGGTCGCA |
| TDP2_rev | TGGTTTCAGGTCGGCGTTCCA |
| FEN1_for | ATGACATCAAGAGCTACTTTGGC |
| FEN1_rev | GGCGAACAGCAATCAGGAACT |
| POLk_for | TGAGGGACAATCCAGAATTGAAG |
| POLk_rev | CTGCACGAACACCAAATCTCC |
| SNAI1 promoter_for | CGCTCCGTAAACACTGGATAA |
| SNAI1 promoter_rev | GCACATCACTGGGGAGGAAG |
| SOX9 promoter_for | CAGGAGGCAAAGACCAAAAC |
| SOX9 promoter_rev | CACATCGACCTTGAGCTCTG |
| ZNF268 promoter_for | CCTGTTGATCCTGCTCTTCTG |
| ZNF268 promoter_rev | GAATAAAGACCCCTTGGATTCAG |
| POLQ gene body_for | GCAGTCCCTTACTGGCAATG |
| POLQ gene body_rev | TGGAGAGTGAGAACCCCTTC |
| STAT1_for | GTGGAAAGACAGCCCTGCAT |
| STAT1_rev | ACTGGACCCCTGTCTTCAAGAC |
| STAT2_for | CCCCATCGACCCCTCATC |
| STAT_rev | GAGTCTCACCAGCAGCCTTGT |
| Sp1_for | GGTGGGCAGTATGTTGTGG |
| Sp1_rev | CCAGGTAGTCCTGTCAGAACTT |
| PPAR_for | ACGCGAGAATGAGGCAGATCCCA |
| PPARa_rev | GGCCTGTGTGGCAGTTCCTACT |
| FXR (NR1H4)_for | GTGAGGGGTGTAAAGGTTTCT |
| FXR (NR1H4)_rev | GCCTGTATACATACATTCAGCCA |
| HNF4a_for | TCTTACGATTTAGCCGGCAGT |
| HNF4a_rev | TTCCTTCTTCATGCCAGCCC |
| HNF1a_Ex2_for | CTCAACCAGTCCCACCTGTC |
| HNF1a_Ex3_rev | GCTCTTCAATCAGCCCTCCC |
| CREB_for | GTGTGTTACGTGGGGGAGAG |
| CREB_rev | GCATCTCCACTCTGCTGGTT |
| CEBP γ_for | TTTCGTAACCGTCGCTCCTC |
| CEBP γ_rev | ATGTTGTTCCTCTCTCGGCG |
| SMC6_Ex14_for | AGCAACGCAACTTGAACAGAT |
| SMC6_Ex15_rev | TCTCTACACACTGGCGCTT |
| SMC5_Ex3_for | GAGGATGTTCTAGAGGCATGGT |
| SMC5_Ex4_rev | AGGCTGCAACTTTCTCTTC |
CEBP, CCAAT/enhancer-binding protein; CREB, CAMP responsive element binding protein; FEN1, flap structure-specific endonuclease 1; for, forward; FXR, nuclear receptor farnesoid X; HNF, hepatocyte nuclear factor; POLk, DNA polymerase kappa; PPAR, peroxisome proliferator activated receptor; rev, reverse; SMC, Structural maintenance of chromosomes; SNAI1, Snail Family Transcriptional Repressor 1; SOX9, SRY-Box Transcription Factor 9; Sp1, specificity protein 1; STAT, signal transducer and activator of transcription; TDP2, tyrosyl-DNA phosphodiesterase-2; ZNF, zinc finger protein.