Table 2.
Properties of Bovine 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% |
The statistical properties of functional annotations in Affymetrix, Blast2GO, ArrayIDer generated by AIGO for each aspect of the gene ontology.