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Table 4 Number of alternative probe set pairs

From: Estimating the similarity of alternative Affymetrix probe sets using transcriptional networks

   

All probe sets

Redundant probe sets

Similarity

Species

Chip

NetNb

PsNb

GeneNb

PairNb

%Gene

%Ps

Ps/Gene

0%

1%

25%

50%

75%

100%

Human

m2

21

12626

9719

3984

21

38

2,38

48

12

9

6

10

15

 

m3

36

22283

14132

12385

34

56

2,60

50

15

8

7

10

12

Mouse

m5

35

12488

9198

2642

18

30

2,23

54

15

7

6

9

9

 

m8

15

45101

23419

44052

44

69

3,03

68

8

6

3

5

9

 

m27

21

22690

13996

13133

38

60

2,56

49

11

9

7

10

14

Rat

m6

15

8799

5759

3596

29

46

2,45

43

9

7

5

10

25

     

Mean

31

50

2,5

52

12

8

6

9

14

  1. Chip: our chip model name (see Table 1); NetNb: number of networks used; PsNb: total number of probe sets; GeneNb: total number of assigned genes; PairNb: number of alternative probe set pairs; %Gene: percentage of genes targeted by these pairs; %Ps: percentage of alternative probe sets; Ps/Gene: mean number of alternative probe sets per gene; 0%, 1%, 25%, 50%, 75%, 100%: percentage of alternative probe set pairs in the different classes of similarity. These results were obtained with a probe number limit set to 1 and they did not change significantly when the probe number limit was set to 7.