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Table 2 Coefficient of variation (CV) of protein abundance as evaluated using InteQuan and using SISQuan

From: An integrated quantification method to increase the precision, robustness, and resolution of protein measurement in human plasma samples

 

Study I

Study II

Study III

Combined HPS dataset

 

CV (%)

CV (%)

CV (%)

Generalized CV (%)

CV (%)

Generalized CV (%)

Protein

InteQuan

SISQuan

InteQuan

SISQuan

InteQuan

SISQuan

InteQuan

SISQuan

InteQuan

SISQuan

InteQuan

SISQuan

KIT

8.8

9.6

4.3

10.5

7.8

35.0

7.7

6.5

10.5

31.7

10.6

12.8

FRIL

16.8

25.2

5.3

11.8

7.3

33.6

7.3

12.0

15.9

25.4

16.7

18.8

COIA1

12.6

17.8

9.0

9.7

10.4

38.5

10.2

14.1

16.1

31.1

16.6

17.5

PRDX1

10.7

15.4

4.9

11.8

9.6

32.2

9.4

14.6

31.9

15.8

31.8

15.5

TENX

11.1

13.6

8.8

12.7

10.7

26.6

10.8

11.1

10.7

32.3

10.6

15.2

ENPL

13.1

18.9

11.2

8.6

11.3

34.9

11.3

13.6

11.7

32.9

11.8

12.6

GRP78

6.8

11.4

19.3

24.2

11.5

33.7

11.2

12.9

13.9

28.5

13.6

18.4

BGH3

5.0

12.3

5.7

9.9

12.4

42.3

12.4

13.8

9.8

33.7

9.6

14.9

ALDOA

6.6

13.6

9.1

17.5

15.1

35.4

14.9

19.9

11.0

35.4

11.2

14.9

GGH

6.9

7.1

9.0

13.7

13.9

38.9

13.7

16.5

11.0

31.7

10.5

16.6

CD14

4.1

8.0

4.6

12.0

4.6

35.3

4.7

6.8

7.9

30.5

7.8

11.9

LG3BP

8.8

13.0

5.9

10.0

5.6

31.1

5.6

7.5

8.6

30.5

8.5

13.9

TSP1

11.6

18.3

12.9

17.0

21.5

45.7

20.9

21.9

20.3

41.1

22.9

25.3

IBP3

5.7

11.6

6.3

13.5

13.5

41.5

14.0

15.5

19.8

26.7

20.5

21.6

TETN

9.9

17.8

9.9

12.4

25.5

52.3

26.9

29.7

33.1

47.6

33.3

37.7

ISLR

10.0

9.1

4.7

10.0

4.2

31.3

4.2

5.0

12.2

33.8

12.1

9.6

Median CV (%)

9.3

13.3

7.6

11.9

11.0

35.1

11.0

13.7

11.9

31.7

11.9

15.3

Median of CV reductiona (%)

4.9

 

4.8

 

25.9

 

2.0

 

21.0

 

3.0

 

Total proteins with lower CV

15

1

15

1

16

0

15

1

15

1

14

2

P value (paired sign test)

5.2 × 10-4

5.2 × 10-4

3.1 × 10-5

5.2 × 10-4

5.2 × 10-4

4.2 × 10-3

Comments

CV of 10 HPS aliquots

Median CV of 15 clinical samples

Median CV of 6 samples

CV of 29 HPS aliquots

  1. aCV reduction was defined as CV using SISQuan minus CV using InteQuan.