Associating Genes with Gene Ontology Codes Using a Maximum Entropy Analysis of Biomedical Literature

Table 5.

Assigning Annotations to Genes from Articles Table 5A. Performance on Genes Using SGD: Curated Articles

Category Num Exact match Partial match
Rank Rank
1 2 3 1 2 3
Metabolism 648 24.69% 22.22% 13.89% 47.22% 31.02% 20.83%
Cell_cycle 135 71.11% 17.04% 8.15% 79.26% 37.04% 25.93%
Signal_transduction 38 28.95% 34.21% 10.53% 50.00% 36.84% 26.32%
Meiosis 5 100.00% 0.00% 0.00% 100.00% 80.00% 20.00%
Intracellular_protein_traffic 66 33.33% 39.39% 13.64% 60.61% 59.09% 43.94%
Sporulation 9 11.11% 0.00% 0.00% 66.67% 44.44% 55.56%
Cell_fusion 27 55.56% 18.52% 14.81% 100.00% 59.26% 37.04%
Stress_response 26 11.54% 26.92% 23.08% 57.69% 46.15% 34.62%
Biogenesis 192 48.96% 18.23% 15.10% 75.52% 45.31% 37.50%
Invasive_growth 1 0.00% 0.00% 0.00% 0.00% 0.00% 0.00%
Transport 37 43.24% 18.92% 27.03% 72.97% 64.86% 64.86%
Ion_homeostasis 13 0.00% 7.69% 84.62% 61.54% 46.15% 84.62%
  • Only those genes with three or more articles were annotated.

This Article

  1. Genome Res. 12: 203-214

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