PTMNavigator

PTMNavigator overlays experimental post-translational modification data with cellular signaling pathway diagrams to enable pathway-centric analysis of PTM regulation.

Key Features:

• Pathway Visualization: Overlays experimental PTM data with interactive pathway diagrams from ~3000 canonical pathways sourced from manually curated databases.
• Custom Diagram Creation: Enables modification and creation of custom pathway diagrams tailored to user data.
• Kinase Enrichment Analysis: Automatically runs kinase enrichment algorithms with results integrated directly into the visualization.
• Pathway Enrichment Analysis: Automatically runs pathway enrichment algorithms with results integrated directly into the visualization.
• ProteomicsDB Integration: Integrated into the ProteomicsDB platform for unified proteomics data analysis.

Scientific Applications:

• Phosphoproteomics Data Analysis: Enhances pathway enrichment analysis of phosphoproteomics datasets to reveal drug treatment effects on PTM-driven signaling.
• Signaling Pathway Extension: Aids in proposing extensions to existing signaling pathways based on observed PTM patterns.
• Drug Response Characterization: Visualizes how drug treatments result in discernible flows of PTM-driven signaling through cellular pathways.
• PTM-Pathway Interaction Discovery: Facilitates discovery of relationships between post-translational modifications and signaling pathways in health and disease contexts.

Methodology:

PTMNavigator integrates experimental PTM data with pathway diagrams from manually curated databases, automatically runs kinase and pathway enrichment algorithms, and integrates these results into interactive visualizations.