NOTE: OwlSim has been replaced by Semsimian.

OwlSim is a tool for ontology-based profile matching, used by the Monarch Initiative and other projects.


Computing on Phenotypes AMP 2015 from Chris Mungall


Robinson, P., Köhler, S., Oellrich, A., Wang, K., Mungall, C., Lewis, S. E., … Smedley, D. (2013). Improved exome prioritization of disease genes through cross species phenotype comparison. Genome Research.

Smedley, D., Oellrich, A., Köhler, S., Ruef, B., Westerfield, M., Robinson, P., … Mungall, C. (2013). PhenoDigm: analyzing curated annotations to associate animal models with human diseases. Database : The Journal of Biological Databases and Curation, 2013, bat025.

Chen, C.-K., Mungall, C. J., Gkoutos, G. V, Doelken, S. C., Köhler, S., Ruef, B. J., … Smedley, D. (2012). MouseFinder: Candidate disease genes from mouse phenotype data. Human Mutation, 33(5), 858–66.

Manda, P., Mungall, C., Balhoff, J., Lapp, H., & Vision, T. (2015). Investigating the importance of anatomical homology for cross-species phenotype comparisons using semantic similarity. bioRxiv. Cold Spring Harbor Labs Journals. Retrieved from