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Table 7 Drug resistance mutation detection in mixed samples

From: Analysis of 454 sequencing error rate, error sources, and artifact recombination for detection of Low-frequency drug resistance mutations in HIV-1 DNA

 

Sequences

DRM at each codon %

Sample

Expectecd mutant %

Observed mutant %

 

Fragment 1 mutations

  

M41

K65

D67

K70

L74

L160

K103

 

Mean

95% CI

Run1MID5

10

16.9

16.21

16.94

15.42

17.01

16.79

16.4

16.67

 

16.49

15.99-17.0

Run1MID7

1

1.50

1.48

1.63

1.32

1.57

1.51

1.45

1.33

 

1.47

1.37-1.55

Run2MID7

50

61.58

60.26

60.91

60.08

61.53

61.38

61.64

62.24

 

61.15

60.43-61.87

Run2MID9

50

63.24

61.56

62.60

61.96

630

62.99

62.85

64.10

 

62.72

61.97-63.48

Run3MID11

50

65.69

65.71

65.67

650

65.69

65.68

65.71

65.72

 

65.60

65.35-65.84

Run3MID12

50

74.63

74.41

74.48

73.92

74.43

74.32

74.59

75.29

 

74.49

74.11-74.87

Fragment 2 mutations

  

Y181

M184

Y188

G190

L205

T215

T215

K219

  

Run1MID10

10

22.26

20.35

20.77

21.05

21.07

21.38

21.35

21.37

22.15

21.19

20.75-21.63

Run1MID11

1

2.24

2.18

2.43

2.40

2.21

1.94

1.76

1.73

1.84

2.06

1.83-2.30

  1. Mean: Mean percentage of all drug resistance codons;
  2. All samples were prepared with standard PCR except Run3 MID11 which was prepared with low recombination PCR.
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Retrovirology

ISSN: 1742-4690

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