Article (Scientific journals)
COVID19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms.
Ostaszewski, Marek; Niarakis, Anna; Mazein, Alexander et al.
2021In Molecular Systems Biology, 17 (10), p. 10387
Peer Reviewed verified by ORBi
 

Files


Full Text
msb.202110387.pdf
Publisher postprint (4.68 MB)
Download

The original publication is available at https://doi.org/10.15252/msb.202110387


All documents in ORBilu are protected by a user license.

Send to



Details



Keywords :
computable knowledge repository; large-scale biocuration; omics data analysis; open access community effort; systems biomedicine
Abstract :
[en] 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.
Research center :
- Luxembourg Centre for Systems Biomedicine (LCSB): Bioinformatics Core (R. Schneider Group)
Disciplines :
Life sciences: Multidisciplinary, general & others
Biotechnology
Immunology & infectious disease
Human health sciences: Multidisciplinary, general & others
Author, co-author :
Ostaszewski, Marek  ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Niarakis, Anna
Mazein, Alexander  ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Kuperstein, Inna
Phair, Robert
Orta-Resendiz, Aurelio
Singh, Vidisha
Aghamiri, Sara Sadat
Acencio, Marcio Luis  ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Glaab, Enrico  ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Biomedical Data Science
Ruepp, Andreas
Fobo, Gisela
Montrone, Corinna
Brauner, Barbara
Frishman, Goar
Monraz Gómez, Luis Cristóbal
Somers, Julia
Hoch, Matti
Kumar Gupta, Shailendra
Scheel, Julia
Borlinghaus, Hanna
Czauderna, Tobias
Schreiber, Falk
Montagud, Arnau
Ponce de Leon, Miguel
Funahashi, Akira
Hiki, Yusuke
Hiroi, Noriko
Yamada, Takahiro G.
Dräger, Andreas
Renz, Alina
Naveez, Muhammad
Bocskei, Zsolt
Messina, Francesco
Börnigen, Daniela
Fergusson, Liam
Conti, Marta
Rameil, Marius
Nakonecnij, Vanessa
Vanhoefer, Jakob
Schmiester, Leonard
Wang, Muying
Ackerman, Emily E.
Shoemaker, Jason E.
Zucker, Jeremy
Oxford, Kristie
Teuton, Jeremy
Kocakaya, Ebru
Summak, Gökçe Yağmur
Hanspers, Kristina
Kutmon, Martina
Coort, Susan
Eijssen, Lars
Ehrhart, Friederike
Rex, Devasahayam Arokia Balaya
Slenter, Denise
Martens, Marvin
Pham, Nhung
Haw, Robin
Jassal, Bijay
Matthews, Lisa
Orlic-Milacic, Marija
Senff Ribeiro, Andrea
Rothfels, Karen
Shamovsky, Veronica
Stephan, Ralf
Sevilla, Cristoffer
Varusai, Thawfeek
Ravel, Jean-Marie
Fraser, Rupsha
Ortseifen, Vera
Marchesi, Silvia
Gawron, Piotr ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Smula, Ewa ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Heirendt, Laurent  ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Satagopam, Venkata ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Wu, Guanming
Riutta, Anders
Golebiewski, Martin
Owen, Stuart
Goble, Carole
Hu, Xiaoming
Overall, Rupert W.
Maier, Dieter
Bauch, Angela
Gyori, Benjamin M.
Bachman, John A.
Vega, Carlos
Groues, Valentin  ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Vazquez, Miguel
Porras, Pablo
Licata, Luana
Iannuccelli, Marta
Sacco, Francesca
Nesterova, Anastasia
Yuryev, Anton
de Waard, Anita
Turei, Denes
Luna, Augustin
Babur, Ozgun
Soliman, Sylvain
Valdeolivas, Alberto
Esteban-Medina, Marina
Peña-Chilet, Maria
Rian, Kinza
Helikar, Tomáš
Puniya, Bhanwar Lal
Modos, Dezso
Treveil, Agatha
Olbei, Marton
De Meulder, Bertrand
Ballereau, Stephane
Dugourd, Aurélien
Naldi, Aurélien
Noël, Vincent
Calzone, Laurence
Sander, Chris
Demir, Emek
Korcsmaros, Tamas
Freeman, Tom C.
Augé, Franck
Beckmann, Jacques S.
Hasenauer, Jan
Wolkenhauer, Olaf
Wilighagen, Egon L.
Pico, Alexander R.
Evelo, Chris T.
Gillespie, Marc E.
Stein, Lincoln D.
Hermjakob, Henning
D'Eustachio, Peter
Saez-Rodriguez, Julio
Dopazo, Joaquin
Valencia, Alfonso
Kitano, Hiroaki
Barillot, Emmanuel
Auffray, Charles
Balling, Rudi
Schneider, Reinhard ;  University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
More authors (129 more) Less
External co-authors :
yes
Language :
English
Title :
COVID19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms.
Publication date :
2021
Journal title :
Molecular Systems Biology
ISSN :
1744-4292
Publisher :
Wiley-Blackwell, United States
Volume :
17
Issue :
10
Pages :
e10387
Peer reviewed :
Peer Reviewed verified by ORBi
Focus Area :
Systems Biomedicine
FnR Project :
FNR14715687 - Combined In Silico Molecular Docking And In Vitro Experimental Assessment Of Drug Repurposing Candidates For Covid-19, 2020 (01/06/2020-30/11/2020) - Enrico Glaab
Name of the research project :
Covid-19 Disease Map
Funders :
FNR - Fonds National de la Recherche [LU]
Available on ORBilu :
since 01 December 2021

Statistics


Number of views
160 (4 by Unilu)
Number of downloads
74 (0 by Unilu)

Scopus citations®
 
41
Scopus citations®
without self-citations
19
OpenCitations
 
21
WoS citations
 
40

Bibliography


Similar publications



Contact ORBilu