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The Human Phenotype Ontology in 2024: phenotypes around the world

  • Michael A. Gargano
  • , Nicolas Matentzoglu
  • , Ben Coleman
  • , Eunice B. Addo-Lartey
  • , Anna V. Anagnostopoulos
  • , Joel Anderton
  • , Paul Avillach
  • , Anita M. Bagley
  • , Eduard Bakštein
  • , James P. Balhoff
  • , Gareth Baynam
  • , Susan M. Bello
  • , Michael Berk
  • , Holli Bertram
  • , Somer Bishop
  • , Hannah Blau
  • , David F. Bodenstein
  • , Pablo Botas
  • , Kaan Boztug
  • , Jolana Čady
  • Tiffany J. Callahan, Rhiannon Cameron, Seth J. Carbon, Francisco Castellanos, J. Harry Caufield, Lauren E. Chan, Christopher G. Chute, Jaime Cruz-Rojo, Noémi Dahan-Oliel, Jon R. Davids, Maudde Dieuleveult, Viniciusde Souza, Bert B.A. de Vries, Estherde Vries, J. Raymond DePaulo, Beata Derfalvi, Ferdinand Dhombres, Claudia Diaz-Byrd, Alexander J.M. Dingemans, Bruno Donadille, Michael Duyzend, Reem Elfeky, Shahim Essaid, Carolina Fabrizzi, Giovanna Fico, Helen V. Firth, Yun Freudenberg-Hua, Janice M. Fullerton, Davera L. Gabriel, Kimberly Gilmour, Jessica Giordano, Fernando S. Goes, Rachel Gore Moses, Ian Green, Matthias Griese, Tudor Groza, Weihong Gu, Julia Guthrie, Benjamin Gyori, Ada Hamosh, Marc Hanauer, Kateřina Hanušová, Yongqun He, Harshad Hegde, Ingo Helbig, Kateřina Holasová, Charles Tapley Hoyt, Shangzhi Huang, Eric Hurwitz, Julius O.B. Jacobsen, Xiaofeng Jiang, Lisa Joseph, Kamyar Keramatian, Bryan King, Katrin Knoflach, David A. Koolen, Megan L. Kraus, Carlo Kroll, Maaike Kusters, Markus S. Ladewig, David Lagorce, Meng Chuan Lai, Pablo Lapunzina, Bryan Laraway, David Lewis-Smith, Xiarong Li, Caterina Lucano, Marzieh Majd, Mary L. Marazita, Victor Martinez-Glez, Toby H. McHenry, Melvin G. McInnis, Julie A. McMurry, Michaela Mihulová, Caitlin E. Millett, Philip B. Mitchell, Veronika Moslerová, Kenji Narutomi, Shahrzad Nematollahi, Julian Nevado, Andrew A. Nierenberg, Nikola Novák Čajbiková, John I. Nurnberger, Soichi Ogishima, Daniel Olson, Abigail Ortiz, Harry Pachajoa, Guiomar Perezde Nanclares, Amy Peters, Tim Putman, Christina K. Rapp, Ana Rath, Justin Reese, Lauren Rekerle, Angharad M. Roberts, Suzy Roy, Stephan J. Sanders, Catharina Schuetz, Eva C. Schulte, Thomas G. Schulze, Martin Schwarz, Katie Scott, Dominik Seelow, Berthold Seitz, Yiping Shen, Morgan N. Similuk, Eric S. Simon, Balwinder Singh, Damian Smedley, Cynthia L. Smith, Jake T. Smolinsky, Sarah Sperry, Elizabeth Stafford, Ray Stefancsik, Robin Steinhaus, Rebecca Strawbridge, Jagadish Chandrabose Sundaramurthi, Polina Talapova, Jair A.Tenorio Castano, Pavel Tesner, Rhys H. Thomas, Audrey Thurm, Marek Turnovec, Marielle E. van Gijn, Nicole A. Vasilevsky, Markéta Vlčková, Anita Walden, Kai Wang, Ron Wapner, James S. Ware, Addo A. Wiafe, Samuel A. Wiafe, Lisa D. Wiggins, Andrew E. Williams, Chen Wu, Margot J. Wyrwoll, Hui Xiong, Nefize Yalin, Yasunori Yamamoto, Lakshmi N. Yatham, Anastasia K. Yocum, Allan H. Young, Zafer Yüksel, Peter P. Zandi, Andreas Zankl, Ignacio Zarante, Miroslav Zvolský, Sabrina Toro, Leigh C. Carmody, Nomi L. Harris, Monica C. Munoz-Torres, Daniel Danis, Christopher J. Mungall, Sebastian Köhler, Melissa A. Haendel, Peter N. Robinson
  • The Jackson Laboratoryfor Genomic Medicine
  • Semanticly
  • Rare Disease Ghana Initiative
  • Jackson Laboratory
  • University of Pittsburgh
  • Harvard University
  • Shriners Children's Northern California
  • National Institute of Mental Health
  • University of North Carolina at Chapel Hill
  • Perth Children’s Hospital
  • Deakin University
  • University of Michigan, Ann Arbor
  • University of California at San Francisco
  • University of Toronto
  • Nostos Genomics GmbH
  • Children's Cancer Research Institute
  • Institute of Health Information and Statistics ofthe Czech Republic
  • Columbia University
  • Simon Fraser University
  • Lawrence Berkeley National Laboratory
  • Oregon State University
  • Johns Hopkins University
  • Hospital Universitario 12 de Octubre
  • Shriners Hospitals for Children
  • Assistance publique – Hôpitaux de Paris
  • European Molecular Biology Laboratory
  • Radboud University Nijmegen
  • Tilburg University
  • Dalhousie University
  • Hôpital Trousseau
  • Sorbonne Université
  • Massachusetts General Hospital
  • University College London
  • University of Colorado Anschutz Medical Campus
  • Institut national de la santé et de la recherche médicale
  • University of Barcelona
  • Cambridge University Hospitals NHS Foundation Trust
  • Northwell Health System
  • Neuroscience Research Australia
  • Great Ormond Street Hospital for Children NHS Foundation Trust
  • National Institutes of Health
  • SNOMED International
  • Ludwig Maximilian University of Munich
  • Chinese HPO Consortium
  • University of Vienna
  • Northeastern University
  • Research Institute
  • Queen Mary University of London
  • University of British Columbia
  • University of Marburg
  • Hospital Universitario La Paz
  • Newcastle University
  • Institutd'Investigaciói InnovacióParc Taulí(I3PT-CERCA)
  • Charles University
  • University of New South Wales
  • Children's Medical Center
  • McGill University
  • Indiana University Bloomington
  • Tohoku University
  • Data Science
  • Universidad ICESI
  • Hospital Universitario Araba
  • Medical Research Council
  • University of Oxford
  • Technische Universität Dresden
  • Charité – Universitätsmedizin Berlin
  • Saarl and University Medical Center UKS
  • Mayo Clinic Rochester, MN
  • Rutgers - The State University of New Jersey, New Brunswick
  • The National Allianceon Mental Illness
  • King's College London
  • Tufts Medicine
  • University of Groningen
  • Critical Path Institute
  • Centers for Disease Control and Prevention
  • University of Edinburgh
  • Joint Support-Center for Data Science Research
  • South London and Maudsley NHS Foundation Trust
  • Bioscientia Institut für Medizinische Diagnostik GmbH
  • University of Sydney
  • Universidad Javeriana
  • Ada Health GmbH

Research output: Contribution to journalArticlepeer-review

247 Scopus citations

Abstract

The Human Phenotype Ontology (HPO) is a widely used resource that comprehensively organizes and defines the phenotypic features of human disease, enabling computational inference and supporting genomic and phenotypic analyses through semantic similarity and machine learning algorithms. The HPO has widespread applications in clinical diagnostics and translational research, including genomic diagnostics, gene-disease discovery, and cohort analytics. In recent years, groups around the world have developed translations of the HPO from English to other languages, and the HPO browser has been internationalized, allowing users to view HPO term labels and in many cases synonyms and definitions in ten languages in addition to English. Since our last report, a total of 2239 new HPO terms and 49235 new HPO annotations were developed, many in collaboration with external groups in the fields of psychiatry, arthrogryposis, immunology and cardiology. The Medical Action Ontology (MAxO) is a new effort to model treatments and other measures taken for clinical management. Finally, the HPO consortium is contributing to efforts to integrate the HPO and the GA4GH Phenopacket Schema into electronic health records (EHRs) with the goal of more standardized and computable integration of rare disease data in EHRs.

Original languageEnglish
Pages (from-to)D1333-D1346
JournalNucleic Acids Research
Volume52
Issue numberD1
DOIs
StatePublished - Jan 5 2024

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