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Updated: Nov 29, 2025

A Web Tool for Generating High Quality Machine-readable Biological Pathways
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WikiPathways: connecting communities.

Marvin Martens1, Ammar Ammar1, Anders Riutta2

  • 1Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, 6229 ER Maastricht, the Netherlands.

Nucleic Acids Research
|November 19, 2020
PubMed
Summary
This summary is machine-generated.

WikiPathways is an open, collaborative biological pathway database. It facilitates community-driven curation and integration with external resources, promoting broader access and use of pathway data.

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Area of Science:

  • Bioinformatics
  • Systems Biology
  • Computational Biology

Background:

  • WikiPathways is a community-driven biological pathway database.
  • It emphasizes open science principles and collaborative curation.
  • Increasing adoption by diverse scientific communities and tools.

Purpose of the Study:

  • To showcase the growth and evolution of WikiPathways.
  • To highlight new community initiatives and collaborations.
  • To describe technological advancements for data integration and accessibility.

Main Methods:

  • Analysis of WikiPathways growth over three years.
  • Identification and description of new community-focused pathway subsets (e.g., rare diseases, lipid metabolism).
  • Review of technologies enabling external resource integration and content utilization.

Main Results:

  • Significant growth in WikiPathways content and user engagement.
  • Emergence of specialized communities driving pathway development.
  • Development of tools and methods for pathway curation and data extraction from literature.

Conclusions:

  • WikiPathways is a growing, valuable resource for biological pathway data.
  • Community involvement and open science are key to its success.
  • Integration with resources like Wikidata and enhanced data sharing are crucial for future sustainability.