BMB Reports

Korean Society for Biochemistry and Molecular Biology (생화학분자생물학회)
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Establishment of the large-scale longitudinal multi-omics dataset in COVID-19 patients: data profile and biospecimen

  • Jo, Hye-Yeong (Division of Healthcare and Artificial Intelligence, Department of Precision Medicine, Korea National Institute of Health, Korea Disease Control and Prevention Agency) ;
  • Kim, Sang Cheol (Division of Healthcare and Artificial Intelligence, Department of Precision Medicine, Korea National Institute of Health, Korea Disease Control and Prevention Agency) ;
  • Ahn, Do-hwan (Division of Healthcare and Artificial Intelligence, Department of Precision Medicine, Korea National Institute of Health, Korea Disease Control and Prevention Agency) ;
  • Lee, Siyoung (Geninus Inc) ;
  • Chang, Se-Hyun (Division of Healthcare and Artificial Intelligence, Department of Precision Medicine, Korea National Institute of Health, Korea Disease Control and Prevention Agency) ;
  • Jung, So-Young (Division of Biobank, Department of Precision Medicine, Korea National Institute of Health, Korea Disease Control and Prevention Agency) ;
  • Kim, Young-Jin (Division of Genome Science, Department of Precision Medicine, Korea National Institute of Health, Korea Disease Control and Prevention Agency) ;
  • Kim, Eugene (Division of Biobank, Department of Precision Medicine, Korea National Institute of Health, Korea Disease Control and Prevention Agency) ;
  • Kim, Jung-Eun (Division of Bio Bigdata, Department of Precision Medicine, Korea National Institute of Health, Korea Disease Control and Prevention Agency) ;
  • Kim, Yeon-Sook (Division of Infectious Disease, Department of Internal Medicine, Chungnam National University School of Medicine) ;
  • Park, Woong-Yang (Geninus Inc) ;
  • Cho, Nam-Hyuk (Department of Microbiology and Immunology, College of Medicine, Seoul National University) ;
  • Park, Donghyun (Geninus Inc) ;
  • Lee, Ju-Hee (Division of Healthcare and Artificial Intelligence, Department of Precision Medicine, Korea National Institute of Health, Korea Disease Control and Prevention Agency) ;
  • Park, Hyun-Young (Department of Precision Medicine, Korea National Institute of Health, Korea Disease Control and Prevention Agency)
  • Received : 2022.05.09
  • Accepted : 2022.07.29
  • Published : 2022.09.30
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Abstract

Understanding and monitoring virus-mediated infections has gained importance since the global outbreak of the coronavirus disease 2019 (COVID-19) pandemic. Studies of high-throughput omics-based immune profiling of COVID-19 patients can help manage the current pandemic and future virus-mediated pandemics. Although COVID-19 is being studied since past 2 years, detailed mechanisms of the initial induction of dynamic immune responses or the molecular mechanisms that characterize disease progression remains unclear. This study involved comprehensively collected biospecimens and longitudinal multi-omics data of 300 COVID-19 patients and 120 healthy controls, including whole genome sequencing (WGS), single-cell RNA sequencing combined with T cell receptor (TCR) and B cell receptor (BCR) sequencing (scRNA(+scTCR/BCR)-seq), bulk BCR and TCR sequencing (bulk TCR/BCR-seq), and cytokine profiling. Clinical data were also collected from hospitalized COVID-19 patients, and HLA typing, laboratory characteristics, and COVID-19 viral genome sequencing were performed during the initial diagnosis. The entire set of biospecimens and multi-omics data generated in this project can be accessed by researchers from the National Biobank of Korea with prior approval. This distribution of large-scale multi-omics data of COVID-19 patients can facilitate the understanding of biological crosstalk involved in COVID-19 infection and contribute to the development of potential methodologies for its diagnosis and treatment.

Keywords

Acknowledgement

We acknowledge all the healthcare workers involved in this study from the Chungnam National University Hospital, Seoul Medical Center, and Samsung Medical Center for their efforts in collecting samples and creating medical records. We also thank all the managers and staff at the hospitals and biobank for sample handling and preprocessing, as well as for the production of high-quality data. This work was supported by the Korea National Institute of Health Infrastructural Research Program 4800-4861-312-210-13 and operation of data center for national biomedical data resources (2021-NI-017-00).

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