Towards precision medicine: Omics approach for COVID-19

doi:10.1016/j.bsheal.2023.01.002

Review

. 2023 Apr;5(2):78-88.

doi: 10.1016/j.bsheal.2023.01.002. Epub 2023 Jan 18.

Towards precision medicine: Omics approach for COVID-19

Xiaoping Cen^{1

2

3

4}, Fengao Wang^{2

5}, Xinhe Huang⁶, Dragomirka Jovic³, Fred Dubee⁷, Huanming Yang^{1

3

4}, Yixue Li^{2

5

8

9

10

11

12}

Affiliations

¹ College of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
² Guangzhou Laboratory, No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005, China.
³ BGI-Shenzhen, Shenzhen 518083, China.
⁴ IBMC-BGI Center, the Cancer Hospital of the University of Chinese Academy of Sciences (Zhejiang Cancer Hospital), Institute of Basic Medicine and Cancer (IBMC), Chinese Academy of Sciences, Hangzhou 310022, China.
⁵ Key Laboratory of Systems Health Science of Zhejiang Province, School of Life Science, Hangzhou Institute for Advanced Study, University of Chinese Academy of Sciences, Hangzhou 310024, China.
⁶ Key Laboratory of Molecular Biophysics of Ministry of Education, Hubei Bioinformatics and Molecular Imaging Key Laboratory, Center for Artificial Intelligence Biology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China.
⁷ Lars Bolund Institute of Regenerative Medicine, Qingdao-Europe Advanced Institute for Life Sciences, BGI-Qingdao, Qingdao 266555, China.
⁸ GZMU-GIBH Joint School of Life Sciences, The Guangdong-Hong Kong-Macau, Joint Laboratory for Cell Fate Regulation and Diseases, Guangzhou Medical University, Guangzhou 511436, China.
⁹ School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China.
¹⁰ Shanghai Institute of Nutrition and Health, Chinese Academy of Sciences Shanghai, Shanghai 200030, China.
¹¹ Collaborative Innovation Center for Genetics and Development, Fudan University, Shanghai 200433, China.
¹² Shanghai Institute for Biomedical and Pharmaceutical Technologies, Shanghai 200032, China.

PMID: 36687209
PMCID: PMC9846903
DOI: 10.1016/j.bsheal.2023.01.002

Review

Towards precision medicine: Omics approach for COVID-19

Xiaoping Cen et al. Biosaf Health. 2023 Apr.

. 2023 Apr;5(2):78-88.

doi: 10.1016/j.bsheal.2023.01.002. Epub 2023 Jan 18.

Authors

Xiaoping Cen^{1

2

3

4}, Fengao Wang^{2

5}, Xinhe Huang⁶, Dragomirka Jovic³, Fred Dubee⁷, Huanming Yang^{1

3

4}, Yixue Li^{2

5

8

9

10

11

12}

Affiliations

¹ College of Life Sciences, University of Chinese Academy of Sciences, Beijing 100049, China.
² Guangzhou Laboratory, No. 9 XingDaoHuanBei Road, Guangzhou International Bio Island, Guangzhou 510005, China.
³ BGI-Shenzhen, Shenzhen 518083, China.
⁴ IBMC-BGI Center, the Cancer Hospital of the University of Chinese Academy of Sciences (Zhejiang Cancer Hospital), Institute of Basic Medicine and Cancer (IBMC), Chinese Academy of Sciences, Hangzhou 310022, China.
⁵ Key Laboratory of Systems Health Science of Zhejiang Province, School of Life Science, Hangzhou Institute for Advanced Study, University of Chinese Academy of Sciences, Hangzhou 310024, China.
⁶ Key Laboratory of Molecular Biophysics of Ministry of Education, Hubei Bioinformatics and Molecular Imaging Key Laboratory, Center for Artificial Intelligence Biology, College of Life Science and Technology, Huazhong University of Science and Technology, Wuhan 430074, China.
⁷ Lars Bolund Institute of Regenerative Medicine, Qingdao-Europe Advanced Institute for Life Sciences, BGI-Qingdao, Qingdao 266555, China.
⁸ GZMU-GIBH Joint School of Life Sciences, The Guangdong-Hong Kong-Macau, Joint Laboratory for Cell Fate Regulation and Diseases, Guangzhou Medical University, Guangzhou 511436, China.
⁹ School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai 200240, China.
¹⁰ Shanghai Institute of Nutrition and Health, Chinese Academy of Sciences Shanghai, Shanghai 200030, China.
¹¹ Collaborative Innovation Center for Genetics and Development, Fudan University, Shanghai 200433, China.
¹² Shanghai Institute for Biomedical and Pharmaceutical Technologies, Shanghai 200032, China.

PMID: 36687209
PMCID: PMC9846903
DOI: 10.1016/j.bsheal.2023.01.002

Abstract

The coronavirus disease 2019 (COVID-19) pandemic had a devastating impact on human society. Beginning with genome surveillance of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the development of omics technologies brought a clearer understanding of the complex SARS-CoV-2 and COVID-19. Here, we reviewed how omics, including genomics, proteomics, single-cell multi-omics, and clinical phenomics, play roles in answering biological and clinical questions about COVID-19. Large-scale sequencing and advanced analysis methods facilitate COVID-19 discovery from virus evolution and severity risk prediction to potential treatment identification. Omics would indicate precise and globalized prevention and medicine for the COVID-19 pandemic under the utilization of big data capability and phenotypes refinement. Furthermore, decoding the evolution rule of SARS-CoV-2 by deep learning models is promising to forecast new variants and achieve more precise data to predict future pandemics and prevent them on time.

Keywords: Artificial intelligence; COVID-19; Multi-omics; Precision medicine.

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Figures

**Fig. 1**
Distribution of confirmed cases and death cases of COVID-19 among different regions (from https://covid19.who.int) .

**Fig. 2**
The framework of current omics-based COVID-19 analysis. Abbreviation: COVID-19, coronavirus disease 2019.

**Fig. 3**
The growth curve of publication numbers with time.

See this image and copyright information in PMC

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References

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[1] Olson D.R., Simonsen L., Edelson P.J., et al. Epidemiological evidence of an early wave of the 1918 influenza pandemic in New York City. PNAS. 2005;102(31):11059–11063. doi: 10.1073/pnas.0408290102. - DOI - PMC - PubMed

[2] Olson D.R., Simonsen L., Edelson P.J., et al. Epidemiological evidence of an early wave of the 1918 influenza pandemic in New York City. PNAS. 2005;102(31):11059–11063. doi: 10.1073/pnas.0408290102. - DOI - PMC - PubMed

[3] G.W.H. Organization, WHO COVID-19 Dashboard. https://covid19.who.int/, 2020 (accessed 01 September 2022)

[4] G.W.H. Organization, WHO COVID-19 Dashboard. https://covid19.who.int/, 2020 (accessed 01 September 2022)

[5] Chen Z., Azman A.S., Chen X., et al. Global landscape of SARS-CoV-2 genomic surveillance and data sharing. Nat. Genet. 2022;54(4):499–507. doi: 10.1038/s41588-022-01033-y. - DOI - PMC - PubMed

[6] Chen Z., Azman A.S., Chen X., et al. Global landscape of SARS-CoV-2 genomic surveillance and data sharing. Nat. Genet. 2022;54(4):499–507. doi: 10.1038/s41588-022-01033-y. - DOI - PMC - PubMed

[7] Maher M.C., Bartha I., Weaver S., et al. Predicting the mutational drivers of future SARS-CoV-2 variants of concern. Sci. Transl. Med. 2022;14(633):eabk3445. doi: 10.1126/scitranslmed.abk3445. - DOI - PMC - PubMed

[8] Maher M.C., Bartha I., Weaver S., et al. Predicting the mutational drivers of future SARS-CoV-2 variants of concern. Sci. Transl. Med. 2022;14(633):eabk3445. doi: 10.1126/scitranslmed.abk3445. - DOI - PMC - PubMed

[9] Hie B., Zhong E.D., Berger B., et al. Learning the language of viral evolution and escape. Science. 2021;371(6526):284–288. doi: 10.1126/science.abd7331. - DOI - PubMed

[10] Hie B., Zhong E.D., Berger B., et al. Learning the language of viral evolution and escape. Science. 2021;371(6526):284–288. doi: 10.1126/science.abd7331. - DOI - PubMed

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Towards precision medicine: Omics approach for COVID-19

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Towards precision medicine: Omics approach for COVID-19

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