Table 6

New human proteins found by our method as potential interaction partners with HPV proteins

HPV protein

Known HHPV

Initial candidates of HHPV by BLAST search

Predicted candidates of HHPV by SVM

Refined candidates of HHPV with GO


E1

9

90

7

6

E2

36

157

28

21

E4

2

11

2

2

E5

13

34

25

23

E6

78

103

38

29

E7

76

100

35

29

E8

7

19

8

8

L1

20

39

8

7

L2

11

7

5

5


Total

252

560

156

130


The 'Initial candidates of HHPV by BLAST search' indicate the initial candidates of human proteins interacting with HPV proteins (HHPV) found by BLAST search from GenBank with the known HHCV as query sequences. The 'Predicted candidates of HHPV by SVM' were determined by the SVM model from the initial candidates of HHPV. The 'Refined candidates of HHPV with GO' were obtained from the predicted candidates by selecting HHCV that has the same GO cellular component terms as the known HHPV.

Cui et al. BMC Bioinformatics 2012 13(Suppl 7):S5   doi:10.1186/1471-2105-13-S7-S5

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