Development of a long non-coding RNA-based machine learning model to predict in-hospital mortality of COVID-19

Machine Learning


The authors would like to thank all contributors to the COVIRNA project: Claude Pelletier, Petr Nazarov, Adriana Voicu, Irina Carpusca, Eric Schordan, Rodwell Mkhwananzi, Stephanie Boutillier, Louis Chauviere, Joanna Michel, Florent Tessier, Reinhard Schneider , Irina Belaur, Wei Gu, Enrico Petretto, Michaela Noseda, Verena Zuber, Pranay Shah, Leonardo Botolo, Leon de Windt, Emma Robinson, George Valiotis, Tina Hadzic, Federica Margheri, Chiara Gonzi, Detlev Kingen-Mills, Christian Vollmer, Thomas Dymski, Emin Tahirovic. For more information about the COVIRNA project, please visit https://covirna.eu/. We dedicate this document to Claude Pelletier, who passed away during the COVIRNA project. His valuable contributions to data analysis are highly recognized and appreciated. We would like to thank all participants in the Predi-COVID study. We also acknowledge the involvement of the interdisciplinary and interinstitutional research teams that contributed to Predi-COVID. A complete list of the Predi-COVID team can be found at https://sites.lih.lu/the-predi-covid-study/about-us/project-team/. We would like to thank the University of Edinburgh DataLoch (https://dataloch.org) and NHS Lothian Bioresource for their support and collaboration with this research. The study uses data provided by patients and collected by the NHS as part of care and support #DataSavesLives. We are extremely grateful to the 2,648 NHS frontline clinical and research staff and volunteer medical students who collected data under difficult circumstances. We would also like to thank the participants and their families for their generosity in making a personal contribution during this difficult time. We would also like to thank Jeremy J Farrar and Shindo Nahoko for their assistance. The study was carried out using the clinical scientific infrastructure of the Network University Medicine (NUM) of NAPKON (Nationales Pandemie Kohorten Netz, German National Pandemic Cohort Network) and NUKLEUS (NUM Klinische Epidemiologie und Studienplattform, NUM Clinical Epidemiology and Research Platform). I did. . We would like to thank all his NAPKON sites for providing patient data and biological samples for this analysis. Representatives of NAPKON facilities contributing at least 5 per mil to this analysis are (in alphabetical order): Bielefeld University, Faculty of Medicine and University Medical Center OWL, Bielefeld (Alsaad K, Hamelmann E, Heidenreich H, Hornberg C, Kramadair Heiden Reich NSA, Maasjosthusmann P, Muna A, Ruwe M, Stelbrink C, Tebbe J), ​​Saarland University, Homburg (Keller A, Walter J), Saarland University Hospital, Homburg (Bals R, Herr C, Krawczyk M, Lensch C , Lepper PM, Riemenschneider) M, Smola S, Zemlin M), Augsburg University Hospital, Augsburg (Baader S, Engelmann M, Fuchs A, Langer A, Märkl B, Messmann H, Muzalyova A, Roenmele C), Erlangen University Hospital. , Erlangen (Klaska D, Kremer) AE, Lepkes M, Mann J, Neurath MF, Prokosch HU, Schmidt J, Wetter M, Willam C, Wolf K), Frankfurt University Hospital, Frankfurt am Main (Arendt C, Bellinghausen C, Kramer S, Groh A, Grünewald A, Khodamoradi Y, Klinsing S, Rohde G, Vehrchild M, Vogl T), Hamburg University Hospital Hamburg-Eppendorf (Addo M, Almahfoud M, Engels ALF, Jarczak D, Kerinn M, Kluge S , Kobbe R, Petereit S, Schlesner C), Zeller T), Aachen University Hospital RWTH, Aachen (Dahl E, Dreher M, Marx N, Müller-Wieland D, Wipperfürth J), Regensburg University Hospital, Regensburg (Blochhausen Delius C, Burckhardt R, Feustel M, Haag O, Hansch S, Hanses F, Malfertheiner M, Niedermair T, Schuster P, Wallner S), Munich University of Technology Hospital, Munich (Barkey W, Erber J, Fricke L, Lieb J, Michler T, Mueller L, Schneider J, Spinner C), Voit F, Winter C), Tübingen University Hospital, Tübingen (Bitzer M, Bunk S, Göpel S, Haeberle H, Kienzle K, Mahrhofer H, Malek N, Rosenberger P, Struemper C, Trauner F), Ruhr University Hospital Bochum, Bochum (Brinkmann F, Brüggemann Y, Gumbichler T, Herwig K, Lücke T, Reinacher-Schick A, Schmidt WE, Schuette C, Steinmann E, Torres Reyes C), Göttingen. University Medical Center, Emergency Department, Göttingen (Blaschke S, Hermanns G, Santibanez-Santana M, Zee S), Göttingen University Medical Center, Göttingen Central Biobank (Nussbeck SY), Göttingen University Medical Center, Göttingen Central Research Institute (Hafke) A), University Medicine Essen (Blochagen L), Dolf S, Elsner C, Krawczyk A, Madel RJ, Otte M, Witzke O), University Medicine Greifswald, Greifswald (Becker K, Doerr M, Lehnert K, Nauck M, Piasta N, Schaefer C, Schaefer E, Schattschneider M, Scher C, Stahl D), Oldenburg University School of Medicine (Alt A, Griesinger F, Günter U, Hamprecht A, Jurgens K, Kluge A, Meinhardt C, Meinhardt K, Petersmann A, Prenzel R). This study was supported by the ACBB, the Augsburg Central Biobank (www.biobank-augsburg.de) and his CCS Biobank of the Cardiovascular Center of the University of Hamburg (https://www.uke.de/kliniken-institute/kliniken/). Supported. kardiologie/forschung/), Central Biobank Erlangen as a core unit of the Friedrich-Alexander University Erlangen-Nuremberg in collaboration with the University Hospital Erlangen 1st Faculty of Medicine, Central Biobank UMG Göttingen (Germany) as a core facility of the University Medical Center, HOM .BMB (Biobank Internal Medicine V, Saarland University, Homburg), Institute of Clinical Chemistry and Laboratory Medicine – Integrated Research Biobank, University of Greifswald Faculty of Medicine, RWTH Centralized Biomaterial Bank for Medical Institutions (RWTH cBMB) Faculty of RWTH Aachen University (https://www.cbmb.ukaachen.de/), West German Biobank Essen (https://www.uni-due.de/med/biobank/), ZBR, Central Biobank Regensburg, iBioTUM, TUM Faculty of Medicine. Central Interdisciplinary Biomaterials Bank as a core unit of the University Hospital of the Technical University of Munich, Interdisciplinary Biobank and Database Frankfurt (https://ibdf-frankfurt.de/). We would like to thank all participating NAPKON infrastructures for contributing to this analysis. Representatives of these NAPKON infrastructures are (in alphabetical order): Hannover Integrated Biobank, Hannover Medical School, Hannover (Berneman I, Illig T, Kersting M, Kropp N, Kopfnagel V, Mücke S), Institute of Epidemiology, Helmholtz. Center Munich, Munich (Anton G, Kuehn-Steven A, Kunze S, Tauchert MK), Frankfurt University Hospital, Frankfurt (Appel K, Geisler R, Hagen M, Scherer M, Schneider J, Sikdar S, Weirauch T, Wolf L) , Cologne University Hospital, Cologne (Brechtel M, Brühl I, Fiedler K, Hopp SM, Laugwitz M, Li C, Mitroff L, Nunes de Miranda S, Sauer G, Schulze N, Seibel K, Stescher M, Wagner P), Wurzburg. University Hospital Würzburg (Günther K, Haug J, Haug F,), University Hospital Würzburg and University of Würzburg (Fiessler C, Heuschmann PU, Miljukov O, Nürnberger C, Reese JP, Schmidbauer L), University of Wurzburg (Jiru-Hillmann) S ), University of Greifswald Faculty of Medicine, University of Greifswald (Bahls T, Hoffmann W, Nauck M, Schaefer C, Schattschneider M, Stahl D, Valentin H), University of Göttingen Faculty of Medicine, Göttingen (Chaplinskaya I, Hans S, Krefting D, Pape C, Rainers) M, Schoeneberg A, Weinert N), Helmholtz Center München, Munich (Klaus M), Charité-Universität Berlin Medijn Berlin, Berlin (Lorbeer R, Schaller J). We would like to thank the NAPKON steering committee: Gießen-Marburg University Hospital, Gießen (Herold S), University of Würzburg, Würzburg (Heuschmann P), Charité University of Berlin (Haider R), Medical University Greifswald, Greifswald ( Hoffmann W), Hannover Integrated Biobank, Hannover Medical School, Hannover (Illig T), Schleswig-Holstein University Hospital, Kiel (Schreiber S), Cologne University Hospital and Frankfurt University Hospital (Wereschild JJ), Charité – Universitaetsmedizin Berlin, Berlin (Witzenrad M). We would like to express our deep gratitude to all the ISARIC4C researchers. The complete ISARIC4C investigator list can be found at this link. This work uses data/material provided by patients and collected by the NHS as part of care and support #DataSavesLives. The data/materials used in this study were obtained from ISARIC4C. Coronavirus Clinical Information Network (CO-CIN) data were collated by ISARIC4C investigators. This research was made possible through the open sharing of Biobanque québécoise de la COVID-19 (BQC19) data and samples. We would like to thank all participants of BQC19 for their contributions. This research was supported by the EU Horizon 2020 project COVIRNA (grant agreement # 101016072). The Predi-COVID study was supported by the Luxembourg National Research Fund (FNR) (Predi-COVID, grant number 14716273), the André Roche Foundation, and the European Agency. Regional Development Fund (FEDER, Congress 2018-04-026-21). The National Pandemic Cohort Network (NAPKON) project is part of the Network University Medicine (NUM), which is funded by the German Federal Ministry of Education and Research (BMBF) (FKZ: 01KX2121). Part of the infrastructure of the Würzburg research facility was supported by the Bavarian Ministry for Research and Arts in support of corona research projects. Part of the NAPKON project suite and the research protocols of the cross-disciplinary platform are based on projects funded by the German Research Center for Infectious Diseases (DZIF). ISARIC4C data and materials were provided by grants from the National Institute for Health Research (NIHR; award CO-CIN-01), the Medical Research Council (MRC; grant MC_PC_19059), and the NIHR Health Protection Research Unit (HPRU). Supported. ) Research in Emerging Infectious and Zoonotic Diseases at the University of Liverpool in partnership with Public Health England (PHE) (Award 200907), NIHR HPRU in Respiratory Infections at Imperial College London in partnership with PHE (Award 200907); the Liverpool Experimental Cancer Medicine Center (grant C18616/A25153), the NIHR Biomedical Research Center at Imperial College, London (award IS-BRC-1215-20013), and the NIHR Clinical Research Center, which provides infrastructure support. Research network. The COVID-19 Biobank is funded by the Quebec Research Foundation, Genome-Santé, Quebec, the Public Health Agency of Canada, and, as of March 2022, the Ministry of Santé-Services and Social Sciences. Project number RRF-2.3.1-21-2022-00003 was implemented with support from the European Union. 2020-1.1.5-GYORSÍTÓSÁV-2021-00011 The project was funded by the Ministry of Innovation and Technology under the 2020-1.1.5-GYORSÍTÓSÁV Call Program with the support of the National Research, Development and Innovation Fund. This project was supported by the Hungarian National Agency for Research, Development and Innovation (NKFIH) grant (2020-1.1.6-JÖVŐ−2021-00013). YD is funded by the EU Horizon 2020 project COVIRNA (grant agreement # 101016072), the National Research Fund (grants # C14/BM/8225223, C17/BM/11613033 and COVID-19/2020-1/14719577/miRCOVID) We are receiving offers. Ministry of Higher Education and Research and Heart Foundation of Luxembourg Daniel Wagner. FM is supported by the Italian Ministry of Health's project “Ricerca Corrente 2023” and POS T4 CAL.HUB.RIA, Tara. T4-AN-09.



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