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Table 3 Comparison of GO clustering classification to Valle's categories

From: Evaluation of high-throughput functional categorization of human disease genes

Valle's Category

Original curation HDG count

True Positives

False Negatives

False Positives

GO-clustering precision

GO-clustering recall

Cell Signaling

20

0

20

0

N/A

0%

Channel

32

28

4

7

34%

88%

Enzyme

232

143

89

15

85%

61%

Extracellular matrix component

54

17

37

21

63%

31%

Hormone

14

0

14

0

N/A

0%

Immunoglobulin

4

0

4

0

N/A

0%

Intracellular matrix component

50

42

8

10

43%

84%

Modulator of protein function

105

28

77

231

25%

27%

Receptor

86

58

28

10

73%

67%

Transcription factor

79

68

11

4

73%

86%

Transmembrane Transporter

35

15

20

42

32%

43%

Totals & overall accuracy scores

711

399

312

340

62%**

56%**

  1. ** Overall accuracy scores are calculated from the overall True positive, false positive and false negative scores (they are not an average of the categorical accuracy scores)
  2. N/A: not applicable because precision cannot be calculated for categories with 0 true positive results and 0 false positives (zero divided by zero).