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Table 4 Measures for seven generalization queries

From: GO2PUB: Querying PubMed with semantic expansion of gene ontology terms

(A) Lipids GO:0044242 GO:0008299 GO:0008654   
Tool GPM G2P GPM G2P GPM G2P   
(a) Number of results 4 26 9 16 25 27   
(b) Relevant among (a) 3 20 1 2 5 11   
(c) Total relevant 22 3 12   
(d) Common results 1 2 5   
(e) Relevant among (d) 1 0 4   
Precision 0.750 0.769 0.111 0.125 0.200 0.407   
Relative Recall 0.136 0.864 0.333 0.667 0.417 0.917   
F-score 0.231 0.814 0.167 0.211 0.270 0.564   
(B) Other GO:0050658 GO:0033013 GO:0006805 GO:0048284
Tool GPM G2P GPM G2P GPM G2P GPM G2P
(a) Number of results 25 10 15 19 30 23 24 17
(b) Relevant among (a) 7 2 3 3 17 14 10 9
(c) Total relevant 9 6 26 16
(d) Common results 3 6 7 8
(e) Relevant among (d) 1 2 4 4
Precision 0.280 0.200 0.200 0.158 0.567 0.609 0.417 0.529
Relative Recall 0.875 0.250 0.600 0.600 0.680 0.560 0.625 0.563
F-score 0.424 0.222 0.300 0.250 0.618 0.583 0.500 0.545
  1. Results’ sets sizes and values of precision, relative recall and F-score using GoPubMed and GO2PUB search tools for seven random queries: three lipid-related queries (part A) and four queries about other topics (part B). Values of precision, relative recall and F-score are calculated from (a), (b) and (c) lines. (d) and (e) lines provide GO2PUB and GoPubMed common results’ sets sizes and the number of common relevant results.