HYGIEIA: HYpothesizing the Genesis of Infectious Diseases and Epidemics through an Integrated Systems Biology Approach
More than two years on, the COVID-19 pandemic continues to wreak havoc around the world and has battle-tested the pandemic-situation responses of all major global governments. Two key areas of investigation that are still unclear are: the molecular mechanisms that lead to heterogenic patient outcome...
| Main Authors: | , , , , , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2022-06-01
|
| Series: | Viruses |
| Subjects: | |
| Online Access: | https://www.mdpi.com/1999-4915/14/7/1373 |
| _version_ | 1797433045336195072 |
|---|---|
| author | Bradley Ward Jean Cyr Yombi Jean-Luc Balligand Patrice D. Cani Jean-François Collet Julien de Greef Joseph P. Dewulf Laurent Gatto Vincent Haufroid Sébastien Jodogne Benoît Kabamba Sébastien Pyr dit Ruys Didier Vertommen Laure Elens Leïla Belkhir |
| author_facet | Bradley Ward Jean Cyr Yombi Jean-Luc Balligand Patrice D. Cani Jean-François Collet Julien de Greef Joseph P. Dewulf Laurent Gatto Vincent Haufroid Sébastien Jodogne Benoît Kabamba Sébastien Pyr dit Ruys Didier Vertommen Laure Elens Leïla Belkhir |
| author_sort | Bradley Ward |
| collection | DOAJ |
| description | More than two years on, the COVID-19 pandemic continues to wreak havoc around the world and has battle-tested the pandemic-situation responses of all major global governments. Two key areas of investigation that are still unclear are: the molecular mechanisms that lead to heterogenic patient outcomes, and the causes of Post COVID condition (AKA Long-COVID). In this paper, we introduce the HYGIEIA project, designed to respond to the enormous challenges of the COVID-19 pandemic through a multi-omic approach supported by network medicine. It is hoped that in addition to investigating COVID-19, the logistics deployed within this project will be applicable to other infectious agents, pandemic-type situations, and also other complex, non-infectious diseases. Here, we first look at previous research into COVID-19 in the context of the proteome, metabolome, transcriptome, microbiome, host genome, and viral genome. We then discuss a proposed methodology for a large-scale multi-omic longitudinal study to investigate the aforementioned biological strata through high-throughput sequencing (HTS) and mass-spectrometry (MS) technologies. Lastly, we discuss how a network medicine approach can be used to analyze the data and make meaningful discoveries, with the final aim being the translation of these discoveries into the clinics to improve patient care. |
| first_indexed | 2024-03-09T10:10:26Z |
| format | Article |
| id | doaj.art-6e958f44e8b24ced9624766faccd3f63 |
| institution | Directory Open Access Journal |
| issn | 1999-4915 |
| language | English |
| last_indexed | 2024-03-09T10:10:26Z |
| publishDate | 2022-06-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Viruses |
| spelling | doaj.art-6e958f44e8b24ced9624766faccd3f632023-12-01T22:46:52ZengMDPI AGViruses1999-49152022-06-01147137310.3390/v14071373HYGIEIA: HYpothesizing the Genesis of Infectious Diseases and Epidemics through an Integrated Systems Biology ApproachBradley Ward0Jean Cyr Yombi1Jean-Luc Balligand2Patrice D. Cani3Jean-François Collet4Julien de Greef5Joseph P. Dewulf6Laurent Gatto7Vincent Haufroid8Sébastien Jodogne9Benoît Kabamba10Sébastien Pyr dit Ruys11Didier Vertommen12Laure Elens13Leïla Belkhir14Integrated Pharmacometrics, Pharmacogenomics and Pharmacokinetics Group (PMGK), Louvain Drug Research Institute (LDRI), UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumDepartment of Internal Medicine, Cliniques Universitaires Saint-Luc, UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumWELBIO (Walloon Excellence in Life Sciences and Biotechnology), Pole of Pharmacology and Therapeutics (FATH), Institut de Recherche Experimentale et Clinique (IREC), Cliniques Universitaires Saint-Luc, UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumWELBIO (Walloon Excellence in Life Sciences and Biotechnology), Metabolism and Nutrition Research Group, Louvain Drug Research Institute (LDRI), UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumWELBIO (Walloon Excellence in Life Sciences and Biotechnology), de Duve Institute, UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumLouvain Center for Toxicology and Applied Pharmacology (LTAP), Institut de Recherche Expérimentale et Clinique (IREC), UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumLouvain Center for Toxicology and Applied Pharmacology (LTAP), Institut de Recherche Expérimentale et Clinique (IREC), UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumComputational Biology and Bioinformatics Unit (CBIO), de Duve Institute, UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumLouvain Center for Toxicology and Applied Pharmacology (LTAP), Institut de Recherche Expérimentale et Clinique (IREC), UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumComputer Science and Engineering Department (INGI), Institute of Information and Communication Technologies, Electronics and Applied Mathematics (ICTEAM), UCLouvain, Université Catholique de Louvain, 1348 Louvain-la-Neuve, BelgiumDepartment of Laboratory Medicine, Cliniques Universitaires Saint-Luc, UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumIntegrated Pharmacometrics, Pharmacogenomics and Pharmacokinetics Group (PMGK), Louvain Drug Research Institute (LDRI), UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumDe Duve Institute, and MASSPROT Platform, UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumIntegrated Pharmacometrics, Pharmacogenomics and Pharmacokinetics Group (PMGK), Louvain Drug Research Institute (LDRI), UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumLouvain Center for Toxicology and Applied Pharmacology (LTAP), Institut de Recherche Expérimentale et Clinique (IREC), UCLouvain, Université Catholique de Louvain, 1200 Brussels, BelgiumMore than two years on, the COVID-19 pandemic continues to wreak havoc around the world and has battle-tested the pandemic-situation responses of all major global governments. Two key areas of investigation that are still unclear are: the molecular mechanisms that lead to heterogenic patient outcomes, and the causes of Post COVID condition (AKA Long-COVID). In this paper, we introduce the HYGIEIA project, designed to respond to the enormous challenges of the COVID-19 pandemic through a multi-omic approach supported by network medicine. It is hoped that in addition to investigating COVID-19, the logistics deployed within this project will be applicable to other infectious agents, pandemic-type situations, and also other complex, non-infectious diseases. Here, we first look at previous research into COVID-19 in the context of the proteome, metabolome, transcriptome, microbiome, host genome, and viral genome. We then discuss a proposed methodology for a large-scale multi-omic longitudinal study to investigate the aforementioned biological strata through high-throughput sequencing (HTS) and mass-spectrometry (MS) technologies. Lastly, we discuss how a network medicine approach can be used to analyze the data and make meaningful discoveries, with the final aim being the translation of these discoveries into the clinics to improve patient care.https://www.mdpi.com/1999-4915/14/7/1373COVID-19post COVID conditionproteomicsmetabolomicsgenomicsmetagenomics |
| spellingShingle | Bradley Ward Jean Cyr Yombi Jean-Luc Balligand Patrice D. Cani Jean-François Collet Julien de Greef Joseph P. Dewulf Laurent Gatto Vincent Haufroid Sébastien Jodogne Benoît Kabamba Sébastien Pyr dit Ruys Didier Vertommen Laure Elens Leïla Belkhir HYGIEIA: HYpothesizing the Genesis of Infectious Diseases and Epidemics through an Integrated Systems Biology Approach Viruses COVID-19 post COVID condition proteomics metabolomics genomics metagenomics |
| title | HYGIEIA: HYpothesizing the Genesis of Infectious Diseases and Epidemics through an Integrated Systems Biology Approach |
| title_full | HYGIEIA: HYpothesizing the Genesis of Infectious Diseases and Epidemics through an Integrated Systems Biology Approach |
| title_fullStr | HYGIEIA: HYpothesizing the Genesis of Infectious Diseases and Epidemics through an Integrated Systems Biology Approach |
| title_full_unstemmed | HYGIEIA: HYpothesizing the Genesis of Infectious Diseases and Epidemics through an Integrated Systems Biology Approach |
| title_short | HYGIEIA: HYpothesizing the Genesis of Infectious Diseases and Epidemics through an Integrated Systems Biology Approach |
| title_sort | hygieia hypothesizing the genesis of infectious diseases and epidemics through an integrated systems biology approach |
| topic | COVID-19 post COVID condition proteomics metabolomics genomics metagenomics |
| url | https://www.mdpi.com/1999-4915/14/7/1373 |
| work_keys_str_mv | AT bradleyward hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT jeancyryombi hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT jeanlucballigand hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT patricedcani hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT jeanfrancoiscollet hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT juliendegreef hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT josephpdewulf hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT laurentgatto hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT vincenthaufroid hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT sebastienjodogne hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT benoitkabamba hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT sebastienpyrditruys hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT didiervertommen hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT laureelens hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach AT leilabelkhir hygieiahypothesizingthegenesisofinfectiousdiseasesandepidemicsthroughanintegratedsystemsbiologyapproach |