PhenoTips: patient phenotyping software for clinical and research use

Girdea M, Dumitriu S, Fiume M, Bowdin S, Boycott KM, Chénier S, Chitayat D, Faghfoury H, Meyn MS, Ray PN, So J, Stavropoulos DJ, Brudno M

Human Mutation 34(8):1057-65, August 2013
DOI: 10.1002/humu.22347


We have developed PhenoTips: open source software for collecting and analyzing phenotypic information for patients with genetic disorders. Oursoftware combines an easy-to-use interface, compatible with any device that runs a Web browser, with a standardized database back end. ThePhenoTips’ user interface closely mirrors clinician workflows so as to facilitate the recording of observations made during the patient encounter. Collected data include demographics, medical history, family history, physical and laboratory measurements, physical findings, and additional notes. Phenotypic information is represented using the Human Phenotype Ontology; however, the complexity of the ontology is hidden behind a user interface, which combines simple selection of common phenotypes with error-tolerant, predictive search of the entire ontology. PhenoTips supports accurate diagnosis by analyzing the entered data, then suggesting additional clinical investigations and providing Online Mendelian Inheritance in Man (OMIM) links to likely disorders. By collecting, classifying, and analyzing phenotypic information during the patient encounter, PhenoTips allows for streamlining of clinic workflow, efficient data entry, improved diagnosis, standardization of collected patient phenotypes, and sharing of anonymizedpatient phenotype data for the study of rare disorders. Our source code and a demo version of PhenoTips are available at

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