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Ostaszewski, M.* ; Niarakis, A.* ; Mazein, A.* ; Kuperstein, I.* ; Phair, R.* ; Orta-Resendiz, A.* ; Singh, V.* ; Aghamiri, S.S.* ; Acencio, M.L.* ; Glaab, E.* ; Ruepp, A. ; Fobo, G. ; Montrone, C. ; Brauner, B. ; Frishman, G. ; Monraz Gómez, L.C.* ; Somers, J.* ; Hoch, M.* ; Kumar Gupta, S.* ; Scheel, J.* ; Borlinghaus, H.* ; Czauderna, T.* ; Schreiber, F.* ; Montagud, A.* ; Ponce de Leon, M.* ; Funahashi, A.* ; Hiki, Y.* ; Hiroi, N.* ; Yamada, T.G.* ; Dräger, A.* ; Renz, A.* ; Naveez, M.* ; Bocskei, Z.* ; Messina, F.* ; Börnigen, D.* ; Fergusson, L.* ; Conti, M.* ; Rameil, M.* ; Nakonecnij, V.* ; Vanhoefer, J.* ; Schmiester, L.* ; Wang, M.* ; Ackerman, E.E.* ; Shoemaker, J.E.* ; Zucker, J.* ; Oxford, K.* ; Teuton, J.* ; Kocakaya, E.* ; Summak, G.Y.* ; Hanspers, K.* ; Kutmon, M.* ; Coort, S.* ; Eijssen, L.* ; Ehrhart, F.* ; Rex, D.A.B.* ; Slenter, D.* ; Martens, M.* ; Pham, N.* ; Haw, R.* ; Jassal, B.* ; Matthews, L.* ; Orlic-Milacic, M.* ; Senff Ribeiro, A.* ; Rothfels, K.* ; Shamovsky, V.* ; Stephan, R.* ; Sevilla, C.* ; Varusai, T.* ; Ravel, J.M.* ; Fraser, R.* ; Ortseifen, V.* ; Marchesi, S.* ; Gawron, P.* ; Smula, E.* ; Heirendt, L.* ; Satagopam, V.P.* ; Wu, G.* ; Riutta, A.* ; Golebiewski, M.* ; Owen, S.* ; Goble, C.* ; Hu, X.* ; Overall, R.W.* ; Maier, D.* ; Bauch, A.* ; Gyori, B.M.* ; Bachman, J.A.* ; Vega, C.* ; Grouès, V.* ; Vázquez, M.J.* ; Porras, P.* ; Licata, L.* ; Iannuccelli, M.* ; Sacco, F.* ; Nesterova, A.* ; Yuryev, A.* ; de Waard, A.* ; Turei, D.* ; Luna, A.* ; Babur, O.* ; Soliman, S.* ; Valdeolivas, A.* ; Esteban-Medina, M.* ; Peña-Chilet, M.* ; Rian, K.* ; Helikar, T.* ; Lal Puniya, B.* ; Módos, D.* ; Treveil, A.* ; Olbei, M.* ; De Meulder, B.* ; Ballereau, S.* ; Dugourd, A.* ; Naldi, A.* ; Noël, V.* ; Calzone, L.* ; Sander, C.* ; Demir, E.* ; Korcsmáros, T.* ; Freeman, T.C.* ; Augé, F.* ; Beckmann, J.S.* ; Hasenauer, J. ; Wolkenhauer, O.* ; Wilighagen, E.L.* ; Pico, A.R.* ; Evelo, C.T.* ; Gillespie, M.E.* ; Stein, L.D.* ; Hermjakob, H.* ; D'Eustachio, P.* ; Saez-Rodriguez, J.* ; Dopazo, J.* ; Valencia, A.* ; Kitano, H.* ; Barillot, E.* ; Auffray, C.* ; Balling, R.* ; Schneider, R.*

COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms.

Mol. Syst. Biol. 17:e10387 (2021)
Publ. Version/Full Text DOI PMC
Open Access Gold
Creative Commons Lizenzvertrag
We need to effectively combine the knowledge from surging literature with complex datasets to propose mechanistic models of SARS-CoV-2 infection, improving data interpretation and predicting key targets of intervention. Here, we describe a large-scale community effort to build an open access, interoperable and computable repository of COVID-19 molecular mechanisms. The COVID-19 Disease Map (C19DMap) is a graphical, interactive representation of disease-relevant molecular mechanisms linking many knowledge sources. Notably, it is a computational resource for graph-based analyses and disease modelling. To this end, we established a framework of tools, platforms and guidelines necessary for a multifaceted community of biocurators, domain experts, bioinformaticians and computational biologists. The diagrams of the C19DMap, curated from the literature, are integrated with relevant interaction and text mining databases. We demonstrate the application of network analysis and modelling approaches by concrete examples to highlight new testable hypotheses. This framework helps to find signatures of SARS-CoV-2 predisposition, treatment response or prioritisation of drug candidates. Such an approach may help deal with new waves of COVID-19 or similar pandemics in the long-term perspective.
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Publication type Article: Journal article
Document type Scientific Article
Corresponding Author
Keywords Computable Knowledge Repository ; Large-scale Biocuration ; Omics Data Analysis ; Open Access Community Effort ; Systems Biomedicine; Nf-kappa-b; Interferon Signaling Pathway; Spike Protein; Sars-cov; Coronavirus; Expression; Sars-cov-2; Beta; Degradation; Environment
ISSN (print) / ISBN 1744-4292
e-ISSN 1744-4292
Journal Molecular Systems Biology
Quellenangaben Volume: 17, Issue: 10, Pages: , Article Number: e10387 Supplement: ,
Publisher EMBO Press
Publishing Place 111 River St, Hoboken 07030-5774, Nj Usa
Non-patent literature Publications
Reviewing status Peer reviewed
Institute(s) Institute of Experimental Genetics (IEG)
Institute of Computational Biology (ICB)
Grants Bundesministerium fur Bildung und Forschung (BMBF)

Fonds National de la Recherche Luxembourg (FNR)
EC | H2020 | H2020 Priority Industrial Leadership | LEIT | H2020 LEIT Information and Communication Technologies (ICT)
NHGRI NIH HHS