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Using the Reactome Database.

Karen Rothfels1, Marija Milacic1, Lisa Matthews2

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|April 13, 2023
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Summary
This summary is machine-generated.

Reactome is a manually curated pathway database that details human biological pathways and processes. It aids in discovering functional relationships in cancer data and includes orthologous reactions in model organisms.

Keywords:
Reactome databasebiological pathwayinteraction networkpathway analysispathway visualization

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Area of Science:

  • Bioinformatics
  • Molecular Biology
  • Systems Biology

Background:

  • Pathway databases are crucial for understanding molecular entity roles in cellular contexts.
  • Pathway-centric views can reveal unexpected functional relationships in biological data, such as gene expression profiles and somatic mutation catalogues.
  • High-quality pathway databases and tools are in high demand for biological research.

Purpose of the Study:

  • To describe the Reactome project, a manually curated pathway database.
  • To highlight the comprehensive nature of Reactome content, spanning metabolism, signaling, and complex cellular events.
  • To present various protocols for utilizing Reactome's data and tools for biological analysis.

Main Methods:

  • Manual curation of biological pathways and processes from primary literature.
  • Expert authoring and peer review of Reactome content.
  • Inclusion of orthologous molecular reactions from model organisms like mouse, rat, and zebrafish.

Main Results:

  • Reactome provides detailed information on human biological pathways and processes.
  • The database includes orthologous reactions in multiple model organisms.
  • A suite of protocols is available for browsing, exploring, and analyzing Reactome data.

Conclusions:

  • Reactome serves as a valuable resource for understanding biological pathways and their roles.
  • The database facilitates the discovery of functional relationships in diverse biological datasets.
  • Reactome's comprehensive data and associated tools support advanced biological research and analysis.