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Table 4 Overall concordance of 274 clinical samples between ChapterDx HPV-STI NGS assay and Roche cobas for 14 high-risk HPVs, stratified by histology and cytology

From: A comprehensive HPV-STI NGS assay for detection of 29 HPV types and 14 non-HPV sexually transmitted infections

 

Roche cobas 4800

Negative

Positive

Agreement (%)

kappaa

ChapterDx HPV-STI NGS assay

 Overall agreement

    

  Negative

26

0

97.5

0.867 (95% CI 0.771–0.963)

  Positive

7

241

  

 NLM (102)

    

  Negative

17

0

95.1

0.842 (95% CI 0.709–0.975)

  Positive

5

80

  

 LSIL (101)

    

  Negative

7

0

98

0.864 (95% CI 0.680–1)

  Positive

2

92

  

 HSIL (57)

    

  Negative

0

0

100

1

  Positive

0

57

  

 CIN1 (4)

    

  Negative

0

0

100

1

  Positive

0

4

  

 CIN2/3 (59)

    

  Negative

0

0

100

1

  Positive

0

59

  

 Squamous carcinomab (3)

    

  Negative

1

0

100

1

  Positive

0

2

  

 Adenocarcinomac (2)

    

  Negative

1

0

100

1

  Positive

0

1

  
  1. aInterpretation values: poor (< 0.20), fair (0.21–0.40), moderate (0.41–0.60), good (0.61–0.80), very good (0.81–1.00)
  2. bThe HPV negative squamous carcinoma was negative with three methods
  3. cThe negative adenocarcinoma was negative by NGS and Roche assays for 14 HPV types but was positive for HPV44 and 81 by ChapterDx HPV-STI NGS assay