Evaluating Large-Scale Biomedical Ontology Matching Over Parallel Platforms

Biomedical systems have been using ontology matching as a primary technique for heterogeneity resolution. However, the natural intricacy and vastness of biomedical data have compelled biomedical ontologies to become large-scale and complex; consequently, biomedical ontology matching has become a computationally intensive task. Our parallel heterogeneity resolution system, i.e., SPHeRe, is built to cater the performance needs of ontology matching by exploiting the parallelism-enabled multicore nature of today’s desktop PC and cloud infrastructure. In this paper, we present the execution and evaluation results of SPHeRe over large-scale biomedical ontologies. We evaluate our system by integrating it with the interoperability engine of a clinical decision support system (CDSS), which generates matching requests for large-scale NCI, FMA, and SNOMEDCT biomedical ontologies. Results demonstrate that our methodology provides an impressive performance speedup of 4.8 and 9.5 times over a quad-core desktop PC and a four virtual machine (VM) cloud platform, respectively.