OAEI 2012::Large BioMed Track

Mapping repair in the OAEI 2012::Large BioMed Track

We have used LogMap's repair facility [1] and Alcomo [2] to repair the alignments generated by the top-7 ontology matching systems [3].

The original alignments and the computed approximate repairs (R≈) can be downloaded as a zip file [255Mb].

The coherence results, before and after repair, are summarized in Tables 1-3 (see complete results in [3]). Note that LogMap and its variant LogMap-noe already provided an almost coherent output.

**Table 1:** Mapping coherence of the top 7 systems
System	FMA-NCI		FMA-SNOMED		SNOMED-NCI
System	\|A ⊑ ⊥\|	Ratio	\|A ⊑ ⊥\|	Ratio	\|A ⊑ ⊥\|	Ratio
LogMap_noe	9	0.01%	10	0.003%	≥0	≥0%
LogMap	9	0.01%	10	0.003%	≥17	≥0.005%
ServOMap	48,743	27%	273,242	71%	≥313,643	≥84%
ServOMapL	50,334	28%	99,726	26%	≥314,939	≥84%
GOMMA	5,574	4%	10,752	3%	≥266,051	≥71%
GOMMA_bk	12,939	9%	119,657	31%	≥313,015	≥84%
YAM++	50,550	29%	106,107	28%	≥269,107	≥72%

**Table 2:** Mapping repair using LogMap.
System	FMA-NCI		FMA-SNOMED		SNOMED-NCI
System	\|R≈\|	\|A ⊑ ⊥\|	\|R≈\|	\|A ⊑ ⊥\|	\|R≈\|	\|A ⊑ ⊥\|
ServOMap	115	9	2,640	0	1,671	≥296
ServOMapL	166	9	2,953	0	1,656	≥1,241
GOMMA	142	9	618	0	2,949	≥37
GOMMA_bk	259	9	5,295	0	5,003	≥1
YAM++	141	9	3,461	0	1,049	≥0

**Table 3:** Mapping repair using Alcomo.
System	FMA-NCI		FMA-SNOMED		SNOMED-NCI
System	\|R≈\|	\|A ⊑ ⊥\|	\|R≈\|	\|A ⊑ ⊥\|	\|R≈\|	\|A ⊑ ⊥\|
ServOMap	97	9	829	0	937	≥35
ServOMapL	126	9	975	0	1,076	≥2,055
GOMMA	123	15	463	0	1,903	≥2,085
GOMMA_bk	184	29	1,726	1,363	2,720	≥30,583
YAM++	116	10	783	0	757	≥0

References

[1] Ernesto Jimenez-Ruiz and Bernardo Cuenca Grau. LogMap: Logic-based and scalable ontology matching. In Proc. of 10th International Semantic Web Conference (ISWC), 2011 [url]

[2] Christian Meilicke. Alignment Incoherence in Ontology Matching. University of Mannheim, Chair of Artificial Intelligence, 2011 [url]

[3] Ernesto Jimenez-Ruiz, Christian Meilicke, Bernardo Cuenca Grau and Ian Horrocks. Evaluating Mapping Repair Systems with Large Biomedical Ontologies. In 26th International Workshop on Description Logics, 2012 [pdf]