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Table 1 HCC-associated SNVs with their pathogenic frequencies through NGS analysis, categorized by level of supporting evidence

From: Applications of next-generation sequencing analysis for the detection of hepatocellular carcinoma-associated hepatitis B virus mutations

Genotype B Genotype C
Site NT Odds ratio (95% CI) Pathogenic frequency (%) Site NT Odds ratio (95% CI) Pathogenic frequency (%)
Level A
 53 C 4.5 (1.8, 11.5) 32 53 C 5.1 (1.6, 16.7) 52.4
 1896 A 3.5 (1.1,10.7) 96.5 1613 A 10.1 (1.2, 83.6) 86.7
 1899 A 5.8 (1.1, 31.0) 96.1 1653 T 4.2 (1.3, 14.2) 60.8
1674 C 11.5 (1.4, 94.8) 55.8
1753 G 3.1 (1.1, 9.4) 100
1764 A 4.6 (1.7, 12.4) 100
1846 T 3.1 (1.2, 8.2) 21.1
Level B
 1913 C 5.5 (1.1, 28.2) 94.3 1386 A 5.2 (1.1, 25.9) 96.7
 2441 C 11.5 (1.4, 96.5) 100 2875 A 5.6 (1.7, 18.3) 94.8
 2525 T 7.5 (1.5, 36.7) 95.5 3066 T 5.6 (1.2, 26.6) 86.8
3120 G 4.8 (1.6, 14.4) 95.9
Level C
 2444 C 4.8 (1.6, 14.3) 92.6 456 G 6.0 (1.2, 29.3) 10.2
Novel
 216 C 5.6 (1.2, 28.3) 100 293 G 2.9 (1.3, 6.4) 1.8
 273 G 5.0 (2.0, 12.8) 12.2 446 G 5.6 (2.0, 15.2) 6.4
 273 A 0.3 (0.1, 0.8) 55 633 A 5.6 (1.1, 27.5) 3.6
 529 G 4.1 (1.4, 12.0) 100 834 G 7.6 (2.1, 28.2) 76.9
 530 A 4.2 (1.3, 14.0) 100 1092 C 5.6 (1.2, 26.6) 50.1
 724 C 4.0 (1.3, 12.0) 91.7 1155 C 5.6 (1.2, 26.6) 87.1
 1173 G 9.2 (1.1, 76.5) 94.1 2201 T 3.7 (1.1, 11.9) 93.3
 1221 C 4.1 (1.1, 14.1) 4.3 2573 C 4.2 (1.3, 14.2) 100
 1242 G 5.1 (1.8, 14.6) 5.5 2594 A 4.0 (1.3, 12.4) 100
 1359 A 3.6 (1.0, 12.5) 2.4 2708 G 5.8 (1.5, 22.1) 100
 2095 G 3.2 (1.3, 8.0) 10.1 2840 T 8.3 (1.8, 38.3) 4.4
 2120 G 3.6 (1.0, 12.5) 67.2 2889 G 5.5 (1.8, 17.6) 85.3
 2213 G 9.8 (1.2, 83.1) 1.7 2901 T 4.1 (1.1, 15.4) 85.1
 2226 T 9.8 (1.2, 83.1) 1.7 2931 C 9.1 (2.0, 41.6) 87.1
 2227 G 9.8 (1.2, 83.1) 1.8 2988 C 9.0 (1.1, 73.6) 92.1
 2227 T 0.2 (0.1, 0.8) 95.5 2989 A 9.0 (1.1, 73.6) 91.7
 2583 G 6.5 (1.2, 32.3) 100 2997 T 9.0 (1.1, 73.6) 90.8
 2690 A 4.9 (1.2, 19.3) 12 2998 C 9.0 (1.1, 73.6) 92.2
3006 A 14.1 (1.8, 111.8) 94.2
3009 G 5.0 (1.0, 24.0) 92.9
3016 C 9.0 (1.1, 73.6) 92.9
3021 A 11.4 (1.4, 91.9) 92.6
3097 A 4.5 (1.2, 16.8) 93.5
  1. Note: The pathogenic frequencies were the cut-off values of SNV frequency for HCC-associated SNVs. The table has been adopted from [70]