Skip to main content

Table 2 Properties of Bovine functional annotations

From: AIGO: Towards a unified framework for the Analysis and the Inter-comparison of GO functional annotations

Measure

AFFY

B2G

AID

 

GO Biol ogical Process

Obsolescence

0.02%

0.04%

0.0%

Coverage

41.2%

28.8%

50.1%

Richness

19.4%

24.1%

22.7%

Avg. nb annot.

3.7

5.3

4.2

Avg. Coherence

0.6

0.5

0.6

Compactness

0.3

0.3

0.4

Avg. Specificity

12.2

13.4

11.3

Avg. IC

5.4

6.0

5.1

Avg. Redundancy

18.1%

2.3%

18.4%

 

GO Molecular Function

Obsolescence

0.0%

0.0%

0.0%

Coverage

49.3%

29.8%

52.3%

Richness

22.4%

24.5%

24.9%

Avg. nb annot.

3.2

2.8

3.3

Avg. Coherence

0.6

0.5

0.6

Compactness

0.5

0.5

0.5

Avg. Specificity

5.1

5.7

5.0

Avg. IC

4.2

4.9

4.2

Avg. Redundancy

32.7%

0.3%

31.8%

 

GO Cellu lar Component

Obsolescence

0.0%

0.0%

0.0%

Coverage

42.7%

30.3%

51.5%

Richness

24.6%

31.4%

27.8%

Avg. nb annot.

2.7

2.5

2.7

Avg. Coherence

0.8

0.7

0.8

Compactness

0.6

0.6

0.6

Avg. Specificity

8.9

11.7

8.3

Avg. IC

3.0

3.8

2.8

Avg. Redundancy

33.2%

0.1%

31.9%

 

All three aspects of GO

Obsolescence

0.01%

0.02%

0.0%

Coverage

56.4%

33.3%

60.4%

Richness

20.7%

24.9%

23.8%

Avg. nb annot.

3.2

3.5

3.4

Avg. Coherence

0.7

0.6

0.7

Compactness

0.5

0.5

0.5

Avg. Specificity

8.7

10.3

8.2

Avg. IC

4.2

4.9

4.1

Avg. Redundancy

28.0%

0.9%

27.4%

  1. The statistical properties of functional annotations in Affymetrix, Blast2GO, ArrayIDer generated by AIGO for each aspect of the gene ontology.