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A Pathway Association Study Tool for GWAS Analyses of Metabolic Pathway Information
Published on: July 1, 2020
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WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research
Denise N Slenter1, Martina Kutmon1,2, Kristina Hanspers3
1Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, 6229 ER Maastricht, The Netherlands.
Nucleic Acids Research
|November 15, 2017
Summary
WikiPathways enhances biological pathway data by improving metabolite annotation and providing machine-readable resources. This makes omics data analysis more accessible and interoperable for researchers.
Area of Science:
- Bioinformatics
- Systems Biology
- Metabolomics
Background:
- WikiPathways is a collaborative, curated database of biological pathways.
- Previous versions primarily focused on genes and proteins, with limited metabolite annotation.
- Growing need for comprehensive metabolic pathway data in omics research.
Purpose of the Study:
- To report on the growth and curation of WikiPathways, focusing on metabolite annotation.
- To enhance the interoperability of pathway knowledge and omics data.
- To improve accessibility of pathway information for researchers.
Main Methods:
- Focused curation efforts on metabolism and metabolic pathways.
- Associated unmapped metabolites with database identifiers.
- Implemented OpenAPI documentation for web services.
- Applied FAIR (Findable, Accessible, Interoperable, Reusable) annotation principles.
Main Results:
- Doubled the number of annotated metabolite nodes in WikiPathways.
- Improved detailed interaction knowledge for metabolites.
- Introduced OpenAPI documentation and FAIR annotations.
- Enhanced search options, downloads, and database links.
Conclusions:
- WikiPathways is a growing, reliable resource for biological pathways, especially metabolism.
- Enhanced annotation and FAIR principles increase data interoperability and accessibility.
- New features facilitate easier access to pathway knowledge for the research community.
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