Aligning the human phenotype and mammalian phenotype ontology using dead simple ontology design patterns

Nicole Vasilevsky, James P. Balhoff, Christopher J. Mungall, David Osumi-Sutherland, Sebastian Kohler, Susan Bello, Cynthia Smith, Peter Robinson, Melissa Haendel

Research output: Contribution to journalConference article

Abstract

The Human Phenotype Ontology (HP) and Mammalian Phenotype (MP) Ontology represent information about abnormal phenotypes encountered in human diseases and mammalian organisms, respectively. It is a goal to co-develop these ontologies and align the terminology and logical axioms to increase interoperability of the two ontologies. Towards this end, we have worked to develop consistent design patterns for commonly used types of classes, such as morphological phenotypes or abnormal anatomical structures. We are currently implementing ‘dead simple ontology design patterns’ (DOSDP), which are design patterns that can be specified in a YAML text file and can be used to generate new terms, documentation, retrofit old terms, and allows for reuse of patterns. This paper describes the development and implementation of the DOSDP in the HP and MP.

Original languageEnglish (US)
JournalCEUR Workshop Proceedings
Volume2137
StatePublished - Jan 1 2017
Event8th International Conference on Biomedical Ontology, ICBO 2017 - Newcastle-upon-Tyne, United Kingdom
Duration: Sep 13 2017Sep 15 2017

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Ontology
Terminology
Interoperability

ASJC Scopus subject areas

  • Computer Science(all)

Cite this

Vasilevsky, N., Balhoff, J. P., Mungall, C. J., Osumi-Sutherland, D., Kohler, S., Bello, S., ... Haendel, M. (2017). Aligning the human phenotype and mammalian phenotype ontology using dead simple ontology design patterns. CEUR Workshop Proceedings, 2137.

Aligning the human phenotype and mammalian phenotype ontology using dead simple ontology design patterns. / Vasilevsky, Nicole; Balhoff, James P.; Mungall, Christopher J.; Osumi-Sutherland, David; Kohler, Sebastian; Bello, Susan; Smith, Cynthia; Robinson, Peter; Haendel, Melissa.

In: CEUR Workshop Proceedings, Vol. 2137, 01.01.2017.

Research output: Contribution to journalConference article

Vasilevsky, N, Balhoff, JP, Mungall, CJ, Osumi-Sutherland, D, Kohler, S, Bello, S, Smith, C, Robinson, P & Haendel, M 2017, 'Aligning the human phenotype and mammalian phenotype ontology using dead simple ontology design patterns', CEUR Workshop Proceedings, vol. 2137.
Vasilevsky N, Balhoff JP, Mungall CJ, Osumi-Sutherland D, Kohler S, Bello S et al. Aligning the human phenotype and mammalian phenotype ontology using dead simple ontology design patterns. CEUR Workshop Proceedings. 2017 Jan 1;2137.
Vasilevsky, Nicole ; Balhoff, James P. ; Mungall, Christopher J. ; Osumi-Sutherland, David ; Kohler, Sebastian ; Bello, Susan ; Smith, Cynthia ; Robinson, Peter ; Haendel, Melissa. / Aligning the human phenotype and mammalian phenotype ontology using dead simple ontology design patterns. In: CEUR Workshop Proceedings. 2017 ; Vol. 2137.
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