Disease Maps Community project Covid-19 host-virus interaction repository project

 Disease Maps Community project

Systems medicine disease maps project is a community-driven comprehensive representation of disease mechanisms effort. The development of computational approaches in systems biology has reached a state of maturity that allows their transition to systems medicine. Despite this progress, intuitive visualisation and context-dependent knowledge representation still present a major bottleneck. In this paper, we describe the Disease Maps Project, an effort towards a community-driven computationally readable comprehensive representation of disease mechanisms. We outline the key principles and the framework required for the success of this initiative, including use of best practices, standards and protocols. We apply a modular approach to ensure efficient sharing and reuse of resources for projects dedicated to specific diseases. Community-wide use of disease maps will accelerate the conduct of biomedical research and lead to new disease ontologies defined from mechanism-based disease endotypes rather than phenotypes.


image equipe Barillot
Systems medicine disease maps: community-driven comprehensive representation of disease mechanisms. NPJ Syst Biol Appl. 2018 Jun 2;4:21. doi:10.1038/s41540-018-0059-y. PubMed PMID: 29872544.
Community-driven roadmap for integrated disease maps. Brief Bioinform. 2018 Apr 23. doi: 10.1093/bib/bby024. PubMed PMID: 29688273.



Covid-19 host-virus interaction repository project


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. The COVID-19 Disease Map is an effort to build a comprehensive, standardized knowledge repository of SARS-CoV-2 virus-host interaction mechanisms, guided by input from domain experts and based on published work. This knowledge, available in the vast body of existing literature and the fast-growing number of new SARS-CoV-2 publications, needs rigorous and efficient organization in both human and machine-readable formats. This endeavour is an open collaboration between clinical researchers, life scientists, pathway curators, computational biologists and data scientists. Currently, 162 contributors from 25 countries around the world are participating in the project, including partners from Reactome, WikiPathways, IMEx Consortium, Pathway Commons, DisGeNET, ELIXIR, and the Disease Maps Community. With this effort, we aim for long-term community-based development of high-quality models and knowledge bases, linked to data repositories. The COVID-19 Disease Map is a platform for visual exploration and computational analyses of molecular processes involved in SARS-CoV-2 entry, replication, and host-pathogen interactions, as well as immune response, host cell recovery and repair mechanisms. The map supports support the research community and improve our understanding of this disease to facilitate the development of efficient diagnostics and therapies.


image equipe Barillot
Sci Data. 2020 May 5;7(1):136. doi: 10.1038/s41597-020-0477-8. PubMed PMID: 32371892.
COVID-19 Disease Map, a computational knowledge repository of SARS-CoV-2 virus-host interaction mechanisms.
bioRxiv. 2020 Oct 28. doi: 10.1101/2020.10.26.356014.