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MIRO Guidelines

Below we follow the MIRO guidelines for reporting on an ontology [1].

A. The basics

B. Motivation

C. Scope, requirements, development community

D. Knowledge acquisition

E. Ontology content

F. Managing change

G. Quality Assurance

[1] Matentzoglu, N., Malone, J., Mungall, C., & Stevens, R. (2018). MIRO: guidelines for minimum information for the reporting of an ontology. Journal of Biomedical Semantics, 9(1), 6.

[2] Dean, S., Mathers, J. M., Calvert, M., Kyte, D. G., Conroy, D., Folkard, A., Southworth, S., Murray, P. I., & Denniston, A. K. (2017). “The patient is speaking”: discovering the patient voice in ophthalmology. The British Journal of Ophthalmology, 101(6), 700–708.

[3] Denniston, A. K., Lee, R. W., Pavesio, C., Stanford, M. R., Murray, P. I., Okada, A., Sen, H. N., & Dick, A. D. (2018). Uveitis Dataset Clinical Dataset. The Royal College of Ophthalmologists.

[4] Schriml, L. M., Arze, C., Nadendla, S., Chang, Y.-W. W., Mazaitis, M., Felix, V., Feng, G., & Kibbe, W. A. (2012). Disease Ontology: a backbone for disease semantic integration. Nucleic Acids Research, 40(Database issue), D940–D946.

[5] Robinson, P. N., Köhler, S., Bauer, S., Seelow, D., Horn, D., & Mundlos, S. (2008). The Human Phenotype Ontology: a tool for annotating and analyzing human hereditary disease. American Journal of Human Genetics, 83(5), 610–615.

[6] Vasant, D., Chanas, L., Malone, J., Hanauer, M., Olry, A., Jupp, S., Robinson, P. N., Parkinson, H., & Rath, A. (2014). Ordo: An ontology connecting rare disease, epidemiology and genetic data. Proceedings of ISMB, 30.

[7] Gkoutos, G. V., Schofield, P. N., & Hoehndorf, R. (2018). The anatomy of phenotype ontologies: principles, properties and applications. Briefings in Bioinformatics, 19(5), 1008–1021.

[8] Mungall, C. J., Torniai, C., Gkoutos, G. V., Lewis, S. E., & Haendel, M. A. (2012). Uberon, an integrative multi-species anatomy ontology. Genome Biology, 13(1), R5.

[9] Smith, B., Kumar, A., & Bittner, T. (2005). Basic Formal Ontology for Bioinformatics. IFOMIS Reports.

[10] Smith, B., Ceusters, W., Klagges, B., Köhler, J., Kumar, A., Lomax, J., Mungall, C., Neuhaus, F., Rector, A. L., & Rosse, C. (2005). Relations in biomedical ontologies. Genome Biology, 6(5), R46.