BMC Bioinformatics

Table 3 Comparison of correlations across measures and reference standards with MeSH

From: Semantic similarity in the biomedical domain: an evaluation across knowledge sources

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.

Back to article page

ISSN: 1471-2105

Contact us

General enquiries: journalsubmissions@springernature.com