We have split the FMA-NCI matching problem in three tasks involving different fragments of FMA and NCI. The reference alignments will be the same for the three tasks, however the complexity will be different, in terms of both performance and scalability, since larger ontologies will also involve more possible candidate mappings.
Note that ontologies have been normalised for the OAEI, as a result the synonyms of concept names are provided as "rdfs:label" annotations.
The complete datasets for the OAEI 2012 campaign can be downloaded as a zip file.
There are 4 reference alignments for the FMA-NCI matching tasks. Three of them are UMLS-based. The fourth has been created by harmonising the outputs of the tools participating in the OAEI 2011.5 campaign.
Required input for SEALS OMT client:
Note that, if you are using the OWL API, the following parameter "-DentityExpansionLimit=100000000" should be given to the JVM in order to be able to load large ontologies.
This task consists of matching two (relatively) small fragments of FMA and NCI. The FMA fragment contains 3,696 classes (5% of FMA), while the NCI fragment contains 6,488 classes (10% of NCI).
This task consists of matching two (relatively) large fragments of FMA and NCI. The FMA fragment contains 28,861 classes (37% of FMA), while the NCI fragment contains 25,591 classes (38% of NCI).
This task consists of matching the whole FMA and NCI ontologies, which contains 78,989 and 66,724 classes, respectively.