The IMEx coronavirus interactome: an evolving map of Coronaviridae-host molecular interactions

L Perfetto; C Pastrello; N Del-Toro; M Duesbury; M Iannuccelli; M Kotlyar; L Licata; B Meldal; K Panneerselvam; S Panni; N Rahimzadeh; S Ricard-Blum; L Salwinski; A Shrivastava; G Cesareni; M Pellegrini; S Orchard; I Jurisica; H Hermjakob; P Porras

doi:10.1093/database/baaa096

The IMEx coronavirus interactome: an evolving map of Coronaviridae-host molecular interactions

Database (Oxford). 2020 Jan 1:2020:baaa096. doi: 10.1093/database/baaa096.

Authors

L Perfetto¹, C Pastrello², N Del-Toro¹, M Duesbury^{1

3}, M Iannuccelli⁴, M Kotlyar², L Licata⁴, B Meldal¹, K Panneerselvam¹, S Panni⁵, N Rahimzadeh^{3

6}, S Ricard-Blum⁷, L Salwinski³, A Shrivastava¹, G Cesareni⁴, M Pellegrini⁸, S Orchard¹, I Jurisica^{2

9}, H Hermjakob¹, P Porras¹

Affiliations

¹ European Molecular Biology Laboratory, Wellcome Genome Campus, European Bioinformatics Institute (EMBL-EBI), Hinxton, CB10 1SD, UK.
² Krembil Research Institute, Data Science Discovery Centre for Chronic Diseases, University Health Network, 5KD-407, 60 Leonard Avenue, Toronto, ON, M5T 0S8, Canada.
³ UCLA-DOE Institute, UCLA, Los Angeles, CA 90095, USA.
⁴ Department of Biology, University of Rome Tor Vergata, Via della Ricerca Scientifica, Rome, 00133, Italy.
⁵ Department of Biology, Ecology and Earth Sciences, Università della Calabria, Rende, 87036, Italy.
⁶ Providence John Wayne Cancer Institute, Department of Translational Molecular, Santa Monica, CA 90404, USA.
⁷ Univ Lyon, University Claude Bernard Lyon 1, INSA Lyon, CPE, Institute of Molecular and Supramolecular Chemistry and Biochemistry (ICBMS), UMR 5246, F-69622 Villeurbanne, 69622, France.
⁸ Department of Molecular, Cell and Developmental Biology, UCLA, Los Angeles, CA 90095, USA .
⁹ Departments of Medical Biophysics and Computer Science, University of Toronto, Toronto, ON, M5T 0S8, Canada.

Abstract

The current coronavirus disease of 2019 (COVID-19) pandemic, caused by the severe acute respiratory syndrome coronavirus (SARS-CoV)-2, has spurred a wave of research of nearly unprecedented scale. Among the different strategies that are being used to understand the disease and develop effective treatments, the study of physical molecular interactions can provide fine-grained resolution of the mechanisms behind the virus biology and the human organism response. We present a curated dataset of physical molecular interactions focused on proteins from SARS-CoV-2, SARS-CoV-1 and other members of the Coronaviridae family that has been manually extracted by International Molecular Exchange (IMEx) Consortium curators. Currently, the dataset comprises over 4400 binarized interactions extracted from 151 publications. The dataset can be accessed in the standard formats recommended by the Proteomics Standards Initiative (HUPO-PSI) at the IntAct database website (https://www.ebi.ac.uk/intact) and will be continuously updated as research on COVID-19 progresses.

Publication types

Dataset
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't

MeSH terms

Betacoronavirus*
COVID-19
Coronaviridae*
Coronavirus Infections*
Host-Pathogen Interactions*
Humans
Organ Specificity
Pandemics*
Pneumonia, Viral*
Protein Interaction Maps*
Proteomics
SARS-CoV-2
Viral Proteins

Substances

Viral Proteins

Abstract

Publication types

MeSH terms

Substances

Grants and funding