CIDO ontology updates and secondary analysis of host responses to COVID-19 infection based on ImmPort reports and literature.

Journal: Journal of biomedical semantics
Published Date: Aug 28, 2021

Abstract

BACKGROUND: With COVID-19 still in its pandemic stage, extensive research has generated increasing amounts of data and knowledge. As many studies are published within a short span of time, we often lose an integrative and comprehensive picture of host-coronavirus interaction (HCI) mechanisms. As of early April 2021, the ImmPort database has stored 7 studies (with 6 having details) that cover topics including molecular immune signatures, epitopes, and sex differences in terms of mortality in COVID-19 patients. The Coronavirus Infectious Disease Ontology (CIDO) represents basic HCI information. We hypothesize that the CIDO can be used as the platform to represent newly recorded information from ImmPort leading the reinforcement of CIDO.

Authors

  • Anthony Huffman
    Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI, United States.
  • Anna Maria Masci
    Department of Immunology, Duke University, Durham, North Carolina, United States of America.
  • Jie Zheng
    State Key Laboratory of Information Engineering in Surveying, Mapping and Remote Sensing, Wuhan University, Wuhan, China.
  • Nasim Sanati
    Department of Medical Informatics and Clinical Epidemiology, Oregon Health and Science University, Portland, OR, 97239, USA.
  • Timothy Brunson
    Department of Medical Informatics and Clinical Epidemiology, Oregon Health and Science University, Portland, OR, 97239, USA.
  • Guanming Wu
    Oregon Health Sciences University, Portland, OR, United States.
  • Yongqun He
    University of Michigan Medical School, Ann Arbor, MI 48109 USA ; Unit for Laboratory Animal Medicine, Department of Microbiology and Immunology, Center for Computational Medicine and Bioinformatics, and Comprehensive Cancer Center, University of Michigan Medical School, 1301 MSRB III, 1150 W. Medical Dr., Ann Arbor, MI 48109 USA.

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