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Table 2 Comparison of the four automated bioassay neighboring methods by using the depositor-defined (human-curated) assay neighbors as a benchmark.

From: The Text-mining based PubChem Bioassay neighboring analysis

Neighboring method Recall Precision F1 score
  Number of common pairs/Number of depositor-specified pairs Number of common pairs/Number of assay pairs by the method Harmonic mean(recall, precision)
1. Activity based 41% [3694/8802] 0.5% [4100/671799] 0.99%
2. Target similarity based 46% [4100/8802] 0.6% [4100/66497] 1.18%
3. Biosystems based 34% [3008/8802] 0.2% [3008/160356] 0.39%
4. Text-mining based 86% [7530/8802] 15.0% [7530/50148] 25.50%