Using human phenotype ontology for phenotypic analysis of clinical notes

Feichen Shen, Liwei Wang, Hongfang D Liu

Research output: Chapter in Book/Report/Conference proceedingConference contribution

6 Citations (Scopus)

Abstract

Phenotypes are defined as observable characteristics of organisms. To facilitate the translation between genotype and phenotype, Human Phenotype Ontology (HPO) was developed as a semantically computable standardized vocabulary to capture phenotypic abnormalities found in human. In this study, we investigated the use of HPO to annotate phenotypic information in clinical domain by leveraging a corpus of 12.8 million clinical notes created from 2010 to 2015 for 729 thousand patients at Mayo Clinic Rochester campus.

Original languageEnglish (US)
Title of host publicationMEDINFO 2017
Subtitle of host publicationPrecision Healthcare through Informatics - Proceedings of the 16th World Congress on Medical and Health Informatics
PublisherIOS Press
Number of pages1
Volume245
ISBN (Electronic)9781614998297
DOIs
StatePublished - Jan 1 2017
Event16th World Congress of Medical and Health Informatics: Precision Healthcare through Informatics, MedInfo 2017 - Hangzhou, China
Duration: Aug 21 2017Aug 25 2017

Publication series

NameStudies in Health Technology and Informatics
Volume245
ISSN (Print)0926-9630
ISSN (Electronic)1879-8365

Other

Other16th World Congress of Medical and Health Informatics: Precision Healthcare through Informatics, MedInfo 2017
CountryChina
CityHangzhou
Period8/21/178/25/17

Fingerprint

Ontology
Phenotype
Vocabulary
Genotype

Keywords

  • Human phenotype ontology
  • Phenotypic analysis
  • Semantics

ASJC Scopus subject areas

  • Biomedical Engineering
  • Health Informatics
  • Health Information Management

Cite this

Shen, F., Wang, L., & Liu, H. D. (2017). Using human phenotype ontology for phenotypic analysis of clinical notes. In MEDINFO 2017: Precision Healthcare through Informatics - Proceedings of the 16th World Congress on Medical and Health Informatics (Vol. 245). (Studies in Health Technology and Informatics; Vol. 245). IOS Press. https://doi.org/10.3233/978-1-61499-830-3-1285

Using human phenotype ontology for phenotypic analysis of clinical notes. / Shen, Feichen; Wang, Liwei; Liu, Hongfang D.

MEDINFO 2017: Precision Healthcare through Informatics - Proceedings of the 16th World Congress on Medical and Health Informatics. Vol. 245 IOS Press, 2017. (Studies in Health Technology and Informatics; Vol. 245).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Shen, F, Wang, L & Liu, HD 2017, Using human phenotype ontology for phenotypic analysis of clinical notes. in MEDINFO 2017: Precision Healthcare through Informatics - Proceedings of the 16th World Congress on Medical and Health Informatics. vol. 245, Studies in Health Technology and Informatics, vol. 245, IOS Press, 16th World Congress of Medical and Health Informatics: Precision Healthcare through Informatics, MedInfo 2017, Hangzhou, China, 8/21/17. https://doi.org/10.3233/978-1-61499-830-3-1285
Shen F, Wang L, Liu HD. Using human phenotype ontology for phenotypic analysis of clinical notes. In MEDINFO 2017: Precision Healthcare through Informatics - Proceedings of the 16th World Congress on Medical and Health Informatics. Vol. 245. IOS Press. 2017. (Studies in Health Technology and Informatics). https://doi.org/10.3233/978-1-61499-830-3-1285
Shen, Feichen ; Wang, Liwei ; Liu, Hongfang D. / Using human phenotype ontology for phenotypic analysis of clinical notes. MEDINFO 2017: Precision Healthcare through Informatics - Proceedings of the 16th World Congress on Medical and Health Informatics. Vol. 245 IOS Press, 2017. (Studies in Health Technology and Informatics).
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