KTAO: A kidney tissue atlas ontology to support community-based kidney knowledge base development and data integration

Yongqun He, Becky Steck, Edison Ong, Laura Mariani, Chrysta Lienczewski, Ulysses Balis, Matthias Kretzler, Jonathan Himmelfarb, John F. Bertram, Evren Azeloglu, Ravi Iyengar, Deborah Hoshizaki, Sean D. Mooney

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

Abstract

The human kidney has a complex structure and diverse interactions among its cells and cell components, both during homeostasis and in its diseased states. To better understand the kidney, it is critical to systematically classify, represent, and integrate kidney gene activities, cell types, cell states, and interstitial components. Toward this goal, we developed a Kidney Tissue Atlas Ontology (KTAO). KTAO reuses and aligns with existing ontologies such as the Cell Ontology, UBERON, and Human Phenotype Ontology. KTAO also generates new semantic axioms to logically link terms of entities in different domains. As a first study, KTAO represents over 200 known kidney gene markers and their profiles in different cell types in kidney patients. Such a representation supports kidney knowledge base generation, query, and data integration.

Original languageEnglish
Title of host publicationProceedings of the 9th International Conference on Biological Ontology (ICBO 2018)
EditorsPankaj Jaiswal, Laurel Cooper, Melissa A. Haendel, Christopher J. Mungall
Place of PublicationAachen, Germany
PublisherRWTH Aachen University
Number of pages6
Volume2285
Publication statusPublished - 22 Dec 2018
EventInternational Conference on Biological Ontology - Corvallis, United States of America
Duration: 7 Aug 201810 Aug 2018
Conference number: 9th

Publication series

NameCEUR Workshop Proceedings
PublisherRheinisch-Westfaelische Technische Hochschule, Aachen
ISSN (Print)1613-0073

Conference

ConferenceInternational Conference on Biological Ontology
Abbreviated titleICBO 2018
CountryUnited States of America
CityCorvallis
Period7/08/1810/08/18

Keywords

  • AKI
  • Atlas
  • CKD
  • Disease
  • Gene marker
  • Kidney
  • KTAO
  • Ontology

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