WikiPathways: Connecting Communities

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 2020 Nov 19

PMID 33211851

Citations 401

Authors

Marvin Martens

Ammar Ammar

Anders Riutta

Andra Waagmeester

Denise N Slenter

Kristina Hanspers

Ryan A Miller

Daniela Digles

Elisson N Lopes

Friederike Ehrhart

Lauren J Dupuis

Laurent A Winckers

Susan L Coort

Egon L Willighagen

Chris T Evelo

Alexander R Pico

Martina Kutmon

Affiliations

Soon will be listed here.

Abstract

WikiPathways (https://www.wikipathways.org) is a biological pathway database known for its collaborative nature and open science approaches. With the core idea of the scientific community developing and curating biological knowledge in pathway models, WikiPathways lowers all barriers for accessing and using its content. Increasingly more content creators, initiatives, projects and tools have started using WikiPathways. Central in this growth and increased use of WikiPathways are the various communities that focus on particular subsets of molecular pathways such as for rare diseases and lipid metabolism. Knowledge from published pathway figures helps prioritize pathway development, using optical character and named entity recognition. We show the growth of WikiPathways over the last three years, highlight the new communities and collaborations of pathway authors and curators, and describe various technologies to connect to external resources and initiatives. The road toward a sustainable, community-driven pathway database goes through integration with other resources such as Wikidata and allowing more use, curation and redistribution of WikiPathways content.

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