Portal:COVID-19

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Welcome to the COVID-19 Pathways Portal on WikiPathways

This special subset of disease pathways is being highlighted during the current COVID-19 crisis. This content is released under a CC0 waiver to be freely used, re-used and distributed. Let us know if you add a new pathway or want to recommend one for this collection.

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Covered Pathways

Pathway Collection

All pathways tagged with "Curation: COVID-19" will be linked to this overview table, to help keep track of the relevant pathways.

Download all human COVID19 pathways

Contact us

Send questions about WikiPathways to the wikipathways-discuss mailing list.

How to add a pathway to the portal

The list of Featured Pathways is not static and can be updated at any time. If you know of a pathway that should be added, please contact the administrator.

• See our Help section for New Contributor QuickStart, Editor's Palette Guide and Guidelines for Contributors.

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Contribute

We are helping to coordinate an international effort to build and curate pathway models relevant to the COVID-19 pandemic. Review the resources below to see how you can get involved.

• growing collection of COVID-19 pathways. If you find or add a pathway at WikiPathways that should be included in this collection, please let us know.
• Published pathway figures related to COVID-19. Useful resource of previously published (but not modeled) pathways for direct translation as new pathways or to inform related pathway curation.
• Protein sequence alignments of SARS-CoV-2. Useful resource mapping SARS-CoV-2 proteins to those previously studied, including many solved structures.
• COVID-19 disease map initiative. An even broader community of pathway curators working with WikiPathways, Pathway Commons, Reactome, Cell Designer and more. Great community and set of resources, including repos, file shares, mailing list and Slack channel.
• Human Coronavirus protein identifiers and SARS-CoV-2 protein identifiers
• PubChem list of the COVID-19 Portal pathways
• KG COVID-19, a knowledge graph aggregating many sources as RDF

IMPORTANT: WikiPathways is dedicated to FAIR standards. All content at WikiPathways is freely available for use and reuse by a CC0 waiver.

Curation

There are curation tests being done, that check a number of drawing patterns, e.g. as agreed with the COVID-19 Disease Maps project. The reports can be found in this repository.

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News

• 26 Nov. 2021 A hackathon led to three new COVID-19 pathways
• 22 Jan. 2021 An index was added to the list of curation reports
• 28 Oct. 2020 A longer paper from the whole COVID Disease Pathways community is available on bioRxiv
• 09 Sept. 2020 This portal was created with content from the Disease portal created in March
• 02 Sept. 2020 COVID19 tag created and added to relevant pathways
• 05 May 2020 The COVID-19 Disease Maps project paper was published
• 23 March 2020 As part of the Disease portal, a collection of COVID-19 disease pathways was started

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Featured Pathway

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Collaborators

This portal is part of the COVID-19 Disease Map project

Authors

The current list of authors and contributors of content of this portal (in alphabetical order): Matthew Conroy, Rex D A B, Jordi Doijen, Lauren Dupuis, Friederike Ehrhart, Chris Evelo, Kristina Hanspers, Amber Koning, Martina Kutmon, Marvin Martens, Penny Nymark, Alex Pico, Denise Slenter, Caroline Thorn, the Reactome project, and many more.

Publications

• A paper about this project was published in Scientific Data: Ostaszewski, et al. "COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms." Scientific data 7.1 (2020): 1-4.
• A more recent, longer paper from the whole community is available on Molecular Systems Biology: Ostaszewski, et al. "COVID-19 Disease Map, a computational knowledge repository of SARS-CoV-2 virus-host interaction mechanisms." Mol Syst Biol (2021) 17:e10387
• This portal is also featured in the latest NAR Database Issue on WikiPathways.