Reactome is excited to announce the beta release of our redesigned Pathway Browser, now available at: https://reactome.org/beta/PathwayBrowser
This major update delivers a modernized user interface (UI) and user experience (UX), along with new visualization and analysis features.
Key Highlights
Event Hierarchy
- New hierarchical navigation panel for species, data overlays, and pathways.
- Color-coded annotations highlight new or updated content.
- Integrated analysis results directly into hierarchy view.
ReacFoam (New Fireworks View)
- Replaces legacy Fireworks with a VoronoΓ―-based map of pathways.
- Pathways sized by molecular complexity and grouped by biological themes.
- Stable, concept-driven layout across platforms.
Enhanced High-Level Illustrations (EHLDs)
- Fully interactive high-level pathway diagrams.
- Now powered by Figma icon library (free & open: https://www.figma.com/community/file/1504140227575930077).
Updated rendering improves analysis overlays and interpretability.
Redesigned Pathway Diagrams
- Cleaner, SBGN-inspired design with consistent shapes and colors.
- Integration of 3D protein structures (via AlphaFold, 3D-Beacons, PDBe) and ChEBI chemical structures.
- Interactive legend and smoother zoom for detailed exploration.
Analysis Tools
- Modernized interface with four streamlined modes:
- Qualitative Pathway Enrichment (renamed from "Analyse gene list")
- Quantitative Pathway Enrichment (renamed from "Analyse gene expression")
- Species Pathway Enrichment (renamed from "Species Comparison")
- Tissue Pathway Enrichment (renamed from "Tissue Distribution")
- New sample-handling, filters, and improved visualization of enrichment results.
Compare Mode (New)
- Side-by-side comparison of normal vs. disease pathways.
- Interactive "layer" interface highlights disease-specific alterations.
- Future-ready for orthology and other comparative applications.
Search Improvements
- Unified results by reference entity (e.g., all forms of a protein).
- Clearer separation between pathway-local and global results.
- Direct navigation to context-specific appearances of entities.
Try It Out
Explore the new Pathway Browser beta at:
π https://reactome.org/beta/PathwayBrowser/
Reactome invites community feedback to refine and finalize this release
π https://forms.gle/TPBxaWnnVLLZj66p8