Table 3

Comparison of correlations across measures and reference standards with MeSH
Benchmark Concept Graph Knowledge Based
PPR Path finding Intrinsic IC Corpus IC Lin
Taxonomy All Wu & Palmer Path, LCH Path LCH Lin
Pedersen Coders N=29 msh 0.36 0.42 0.42 0.51 0.54 0.51 0.51
msh-umls 0.20 0.20 0.37 0.38 0.44 0.53 0.45 0.43
Pedersen Physicians N=29 msh 0.30 0.40 0.40 0.41 0.39 0.41 0.41
msh-umls 0.15 0.15 0.40 0.41 0.42 0.41 0.42 0.38
Pedersen Combined N=29 msh 0.31 0.42 0.42 0.46 0.43 0.46 0.46
msh-umls 0.16 0.16 0.41 0.42 0.44 0.45 0.45 0.41
Mayo N=61 msh 0.27 0.37 0.35 0.47 0.37 0.46 0.45
msh-umls 0.05 0.05 0.20 0.26 0.25 0.25 0.25 0.20
UMN similarity N=429 msh 0.27 0.25 0.26 0.32 0.29 0.33 0.33
msh-umls 0.18 0.18 0.26 0.25 0.29 0.29 0.30 0.29
UMN relatedness N=432 msh 0.35 0.33 0.33 0.41 0.36 0.41 0.42
msh-umls 0.18 0.18 0.35 0.34 0.34 0.35 0.34 0.34

Abbreviations: LCH - Leacock & Chodorow, PPR – Personalized PageRank. Refer to Table 1 for concept graph descriptions.

Garla and Brandt

Garla and Brandt BMC Bioinformatics 2012 13:261   doi:10.1186/1471-2105-13-261

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