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Table 7 Average speed in CUI concept pairs per second (pairs/s) for the evaluation of random CUI pairs with three representative ontology-based similarity measures based on the MeSH ontology (Nov, 2019. 59,747 nodes) implemented by the three UMLS-based semantic measures libraries reported in the literature

From: HESML: a real-time semantic measures library for the biomedical domain with a reproducible survey

Similarity measure

UMLS::Similarity

SML

HESML

Avg. speed (pairs/s)

Avg. speed (pairs/s)

Avg. speed (pairs/s)

Rada [71]

30.43 (15)

0.096 (15)

644729\((10^7)\)

AncSPL-Rada

(this work)

–

–

705189\((10^7)\)

Lin-Seco [87, 110]

140.82 (500)

532913\((10^7)\)

824307\((10^7)\)

Wu-Palmer\(_{fast}\) [72]

21.34 (15)

–

717535\((10^7)\)

  1. Best performing values are shown in bold. Non-implemented methods (–). The number of random CUI pairs evaluated to measure each value is shown between parentheses