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Signalling maps in cancer research: construction and data analysis.

Maria Kondratova1,2,3, Nicolas Sompairac1,2,3, Emmanuel Barillot1,2,3

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Creating comprehensive molecular signalling network maps requires standardized notations and computational methods. The Atlas of Cancer Signalling Network and NaviCell platform offer solutions for map construction and exploration.

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Area of Science:

  • Systems Biology
  • Bioinformatics
  • Computational Biology

Background:

  • High-quality molecular signalling network maps are crucial for understanding biological processes.
  • Standardizing notations, curation, and computational methods can enhance map utility.
  • Challenges exist in assembling and managing complex molecular interaction data.

Purpose of the Study:

  • To summarize aims and challenges in creating comprehensive molecular interaction maps.
  • To share experience from developing the Atlas of Cancer Signalling Network.
  • To present the NaviCell platform for exploring molecular maps.

Main Methods:

  • Developing standardized notations and curation workflows.
  • Implementing a hierarchical modular map structure for complexity management.
  • Utilizing the NaviCell platform with Google Maps API and semantic zooming for navigation.

Main Results:

  • A step-by-step procedure for map construction was detailed.
  • The NaviCell platform was introduced for interactive exploration of molecular maps.
  • Examples of cancer high-throughput data analysis visualized on signalling maps were presented.

Conclusions:

  • Standardization and computational tools like NaviCell improve the generation and use of molecular maps.
  • Hierarchical structures and semantic zooming aid in navigating complex biological networks.
  • The Atlas of Cancer Signalling Network serves as a model for comprehensive map creation.