RT Journal Article
SR Electronic
T1 COVID-19 Disease Map, a computational knowledge repository of SARS-CoV-2 virus-host interaction mechanisms
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2020.10.26.356014
DO 10.1101/2020.10.26.356014
A1 Marek Ostaszewski
A1 Anna Niarakis
A1 Alexander Mazein
A1 Inna Kuperstein
A1 Robert Phair
A1 Aurelio Orta-Resendiz
A1 Vidisha Singh
A1 Sara Sadat Aghamiri
A1 Marcio Luis Acencio
A1 Enrico Glaab
A1 Andreas Ruepp
A1 Gisela Fobo
A1 Corinna Montrone
A1 Barbara Brauner
A1 Goar Frishman
A1 Luis Cristóbal Monraz Gómez
A1 Julia Somers
A1 Matti Hoch
A1 Shailendra Kumar Gupta
A1 Julia Scheel
A1 Hanna Borlinghaus
A1 Tobias Czauderna
A1 Falk Schreiber
A1 Arnau Montagud
A1 Miguel Ponce de Leon
A1 Akira Funahashi
A1 Yusuke Hiki
A1 Noriko Hiroi
A1 Takahiro G. Yamada
A1 Andreas Dräger
A1 Alina Renz
A1 Muhammad Naveez
A1 Zsolt Bocskei
A1 Francesco Messina
A1 Daniela Börnigen
A1 Liam Fergusson
A1 Marta Conti
A1 Marius Rameil
A1 Vanessa Nakonecnij
A1 Jakob Vanhoefer
A1 Leonard Schmiester
A1 Muying Wang
A1 Emily E. Ackerman
A1 Jason Shoemaker
A1 Jeremy Zucker
A1 Kristie Oxford
A1 Jeremy Teuton
A1 Ebru Kocakaya
A1 Gökçe Yağmur Summak
A1 Kristina Hanspers
A1 Martina Kutmon
A1 Susan Coort
A1 Lars Eijssen
A1 Friederike Ehrhart
A1 D. A. B. Rex
A1 Denise Slenter
A1 Marvin Martens
A1 Nhung Pham
A1 Robin Haw
A1 Bijay Jassal
A1 Lisa Matthews
A1 Marija Orlic-Milacic
A1 Andrea Senff Ribeiro
A1 Karen Rothfels
A1 Veronica Shamovsky
A1 Ralf Stephan
A1 Cristoffer Sevilla
A1 Thawfeek Varusai
A1 Jean-Marie Ravel
A1 Rupsha Fraser
A1 Vera Ortseifen
A1 Silvia Marchesi
A1 Piotr Gawron
A1 Ewa Smula
A1 Laurent Heirendt
A1 Venkata Satagopam
A1 Guanming Wu
A1 Anders Riutta
A1 Martin Golebiewski
A1 Stuart Owen
A1 Carole Goble
A1 Xiaoming Hu
A1 Rupert W. Overall
A1 Dieter Maier
A1 Angela Bauch
A1 Benjamin M. Gyori
A1 John A. Bachman
A1 Carlos Vega
A1 Valentin Grouès
A1 Miguel Vazquez
A1 Pablo Porras
A1 Luana Licata
A1 Marta Iannuccelli
A1 Francesca Sacco
A1 Anastasia Nesterova
A1 Anton Yuryev
A1 Anita de Waard
A1 Denes Turei
A1 Augustin Luna
A1 Ozgun Babur
A1 Sylvain Soliman
A1 Alberto Valdeolivas
A1 Marina Esteban- Medina
A1 Maria Peña-Chilet
A1 Kinza Rian
A1 Tomáš Helikar
A1 Bhanwar Lal Puniya
A1 Dezso Modos
A1 Agatha Treveil
A1 Marton Olbei
A1 Bertrand De Meulder
A1 Aurélien Dugourd
A1 Aurélien Naldi
A1 Vincent Noë
A1 Laurence Calzone
A1 Chris Sander
A1 Emek Demir
A1 Tamas Korcsmaros
A1 Tom C. Freeman
A1 Franck Augé
A1 Jacques S. Beckmann
A1 Jan Hasenauer
A1 Olaf Wolkenhauer
A1 Egon L. Wilighagen
A1 Alexander R. Pico
A1 Chris T. Evelo
A1 Marc E. Gillespie
A1 Lincoln D. Stein
A1 Henning Hermjakob
A1 Peter D’Eustachio
A1 Julio Saez-Rodriguez
A1 Joaquin Dopazo
A1 Alfonso Valencia
A1 Hiroaki Kitano
A1 Emmanuel Barillot
A1 Charles Auffray
A1 Rudi Balling
A1 Reinhard Schneider
A1 the COVID-19 Disease Map Community
YR 2021
UL http://biorxiv.org/content/early/2021/02/26/2020.10.26.356014.abstract
AB 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. We discuss the tools, platforms, and guidelines necessary for the distributed development of its contents by a multi-faceted community of biocurators, domain experts, bioinformaticians, and computational biologists. We highlight the role of relevant databases and text mining approaches in enrichment and validation of the curated mechanisms. We describe the contents of the Map and their relevance to the molecular pathophysiology of COVID-19 and the analytical and computational modelling approaches that can be applied for mechanistic data interpretation and predictions. We conclude by demonstrating concrete applications of our work through several use cases and highlight new testable hypotheses.Competing Interest StatementD. Maier and A. Bauch are employed at Biomax Informatics AG and will be affected by any effect of this publication on the commercial version of the AILANI software. J.A. Bachman and B. Gyori received consulting fees from Two Six Labs, LLC. T. Helikar has served as a shareholder and/or has consulted for Discovery Collective, Inc. R. Balling and R. Schneider are founders and shareholders of MEGENO S.A. and ITTM S.A. Remaining authors have declared no competing interests.