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Table 9 Results of the three tools matching Hs and Sc sequences

From: Transferring functional annotations of membrane transporters on the basis of sequence similarity and sequence motifs

 

BLAST

HMMER

MEME

1e-20

1e-16

1e-12

1e-8

1e-4

1e-20

1e-16

1e-12

1e-8

1e-4

1e-20

1e-16

1e-12

1e-8

1e-4

Precision

66.7

66.7

62.1

59.2

38.6

66.7

66.7

66.7

66.5

65.1

0.0

66.7

66.7

37.6

25.0

Recall

66.7

66.7

66.7

66.7

55.4

66.7

66.7

66.7

66.7

64.3

0.0

66.7

66.7

31.3

34.1

F-measure

66.7

66.7

64.1

62.1

45.1

66.7

66.7

66.7

66.6

64.7

0.0

66.7

66.7

34.1

27.4

Unclassified

66.7

60.0

60.0

60.0

6.7

66.7

66.7

60.0

60.0

53.3

100.0

33.3

33.3

0.0

0.0

  1. Hs transporters were better annotated using Sc transporters compared to At. The results were corrected for the size of the reference database (see text). About half of the transporters remained unannotated in the HMMER runs. Two thirds of the human transporters were annotated using MEME at the threshold of 1e-16.
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BMC Bioinformatics

ISSN: 1471-2105

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