. 2020 Jun 19;15(6):e0234773. doi: 10.1371/journal.pone.0234773

Table 4. Comparison of the pre-S genotyping results by IHC- and NGS-based analyses in 30 HBV-related HCC patients.

Patient groups by pre-S genotyping	McNemar’s paired proportion test				Simple Kappa Coefficient
Patient groups by pre-S genotyping		NGS (−)	NGS (+)	P value	κ value	95% CI
Patients without (−)/with (+) any type of GGH/pre-S del (n) (%)	IHC (−)	5 (17)^a	6 (20)^b	0.0143	0.51	0.20–0.81
	IHC (+)	0 (0)^c	19 (63)^d	0.0143	0.51	0.20–0.81
Patients without (−)/with (+) type I GGH (score 1–4) and type II GGH (score 0–4)/deletion spanning pre-S1 gene segment (n) (%)	IHC (−)	12 (40)	5 (17)	0.0253	0.67	0.42–0.92
	IHC (+)	0 (0)	13 (43)	0.0253	0.67	0.42–0.92
Patients without (−)/with (+) type II GGH (score 1–4) and type I GGH (score 0–4)/deletion spanning pre-S2 gene segment (n) (%)	IHC (−)	9 (30)	6 (20)	0.0143	0.60	0.33–0.86
	IHC (+)	0 (0)	15 (50)	0.0143	0.60	0.33–0.86

^aThe number of patients without the indicated GGH and pre-S deletion by both IHC- and NGS-based analyses.

^bThe number of patients with the indicated pre-S deletion by NGS- but not IHC-based analysis.

^cThe number of patients with the indicated pre-S deletion by IHC- but not NGS-based analysis.

^dThe number of patients with the indicated pre-S deletion by both IHC- and NGS-based analyses.

Abbreviations: NGS, next-generation sequencing; GGH, ground glass hepatocytes; IHC, immunohistochemistry; del, deletion; n, number.