COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms

Marek Ostaszewski; Alexander Mazein; Marc E Gillespie; Inna Kuperstein; Anna Niarakis; Henning Hermjakob; Alexander R Pico; Egon L Willighagen; Chris T Evelo; Jan Hasenauer; Falk Schreiber; Andreas Dräger; Emek Demir; Olaf Wolkenhauer; Laura I Furlong; Emmanuel Barillot; Joaquin Dopazo; Aurelio Orta-Resendiz; Francesco Messina; Alfonso Valencia; Akira Funahashi; Hiroaki Kitano; Charles Auffray; Rudi Balling; Reinhard Schneider

doi:10.1038/s41597-020-0477-8

COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms

Sci Data. 2020 May 5;7(1):136. doi: 10.1038/s41597-020-0477-8.

Authors

Marek Ostaszewski¹, Alexander Mazein^{1

2}, Marc E Gillespie^{3

4}, Inna Kuperstein⁵, Anna Niarakis⁶, Henning Hermjakob⁷, Alexander R Pico⁸, Egon L Willighagen⁹, Chris T Evelo^{9

10}, Jan Hasenauer^{11

12

13}, Falk Schreiber^{14

15}, Andreas Dräger^{16

17

18}, Emek Demir¹⁹, Olaf Wolkenhauer^{20

21}, Laura I Furlong²², Emmanuel Barillot⁵, Joaquin Dopazo^{23

24

25

26}, Aurelio Orta-Resendiz^{27

28}, Francesco Messina^{29

30}, Alfonso Valencia^{31

32}, Akira Funahashi³³, Hiroaki Kitano^{34

35

36}, Charles Auffray², Rudi Balling¹, Reinhard Schneider³⁷

Affiliations

¹ Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Belvaux, Luxembourg.
² European Institute for Systems Biology and Medicine (EISBM), Vourles, France.
³ Ontario Institute for Cancer Research, Toronto, Canada.
⁴ College of Pharmacy and Health Sciences, St. John's University, Queens, NY, USA.
⁵ Institut Curie, PSL Research University, Mines Paris Tech, Inserm, Paris, France.
⁶ Department of Biology, Univ. Évry, University of Paris-Saclay, Genopole, 91025, Évry, France.
⁷ European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Hinxton, UK.
⁸ Institute of Data Science and Biotechnology, Gladstone Institutes, San Francisco, United States.
⁹ Department of Bioinformatics-BiGCaT, NUTRIM, Maastricht University, Maastricht, The Netherlands.
¹⁰ Maastricht Centre for Systems Biology, Maastricht University, Maastricht, The Netherlands.
¹¹ Helmholtz Zentrum München, Institute of Computational Biology, Neuherberg, Germany.
¹² Center for Mathematics, Technische Universität München, Garching, Germany.
¹³ Faculty of Mathematics and Natural Sciences, University of Bonn, Bonn, Germany.
¹⁴ University of Konstanz, Department of Computer and Information Science, Konstanz, Germany.
¹⁵ Monash University, Faculty of Information Technology, Melbourne, Australia.
¹⁶ Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens, Institute for Bioinformatics and Medical Informatics (IBMI), University of Tübingen, 72076, Tübingen, Germany.
¹⁷ Department of Computer Science, University of Tübingen, 72076, Tübingen, Germany.
¹⁸ German Center for Infection Research (DZIF), partner site, Tübingen, Germany.
¹⁹ Department of Molecular and Medical Genetics, School of Medicine, Oregon Health & Science University, Portland, USA.
²⁰ Department of Systems Biology & Bioinformatics, University of Rostock, Rostock, Germany.
²¹ Stellenbosch Institute of Advanced Study (STIAS), Wallenberg Research Centre at Stellenbosch University, 7602, Stellenbosch, South Africa.
²² Research Programme on Biomedical Informatics, Hospital del Mar Medical Research Institute, Department of Experimental and Health Sciences, Pompeu Fabra University, Barcelona, Spain.
²³ Clinical Bioinformatics Area, Fundación Progreso y Salud. Hosp. Virgen del Rocío, Sevilla, Spain.
²⁴ Bioinformatics in Rare Diseases. Centro de Investigación Biomédica en Red de Enfermedades Raras, Fundación Progreso y Salud, Hosp. Virgen del Rocío, Sevilla, Spain.
²⁵ INB-ELIXIR-es, FPS, Hospital Virgen del Rocío, Sevilla, 42013, Spain.
²⁶ Institute of Biomedicine of Seville (IBIS), Hospital Virgen del Rocio, 41013, Sevilla, Spain.
²⁷ HIV, Inflammation and Persistence Unit, Virology Department, Institut Pasteur, Paris, France.
²⁸ Bio Sorbonne Paris Cité, Université de Paris, Paris, France.
²⁹ Dipartimento di Epidemiologia Ricerca Pre-Clinica e Diagnostica Avanzata, National Institute for Infectious Diseases "Lazzaro Spallanzani" I.R.C.C.S., Rome, Italy.
³⁰ COVID 19 INMI Network Medicine for IDs Study Group, National Institute for Infectious Diseases "Lazzaro Spallanzani" I.R.C.C.S., Rome, Italy.
³¹ Barcelona Supercomputing Center (BSC), Barcelona, Spain.
³² Institucio Catalana de Recerca I Estudis Avançats (ICREA), Barcelona, Spain.
³³ Department of Biosciences and Informatics, Keio University, Yokohama, Kanagawa, Japan.
³⁴ The Systems Biology Institute, Shinagawa, Tokyo, Japan.
³⁵ Okinawa Institute of Science and Technology Graduate University, Kunigami, Okinawa, Japan.
³⁶ Sony Computer Science Laboratories, Inc., Tokyo, Japan.
³⁷ Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Belvaux, Luxembourg. reinhard.schneider@uni.lu.

Abstract

Researchers around the world join forces to reconstruct the molecular processes of the virus-host interactions aiming to combat the cause of the ongoing pandemic.

MeSH terms

Betacoronavirus*
COVID-19
Computational Biology
Coronavirus Infections* / immunology
Coronavirus Infections* / virology
Databases, Factual
Host Microbial Interactions*
Host-Pathogen Interactions*
Humans
International Cooperation
Models, Biological
Pandemics*
Pneumonia, Viral* / immunology
Pneumonia, Viral* / virology
SARS-CoV-2

Grants and funding

P41 GM103504/GM/NIGMS NIH HHS/United States