CellNetVis: a web tool for visualization of biological networks using force-directed layout constrained by cellular
Henry Heberle1, Marcelo Falsarella Carazzolle2, Guilherme P Telles3
1University of São Paulo, Instituto de Ciências Matemáticas e de Computação, Av. Trabalhador São-carlense, 400, São Carlos-SP, Brazil.
BMC Bioinformatics
|September 21, 2017
Summary
CellNetVis is a new open-source web tool that visualizes biological networks within cellular compartments using a constrained force-directed layout. This tool enhances the dynamic exploration of complex molecular interaction networks.
Area of Science:
- Systems biology
- Bioinformatics
- Computational biology
Background:
- Omics science enables high-throughput analysis of molecular interactions, offering insights into cellular pathways.
- Biomolecular networks represent cellular components (nodes) and their interactions (edges).
- Visualizing networks within cellular compartments aids in understanding biological functions and element localization.
Purpose of the Study:
- To develop a web tool for visualizing biological networks within a cell diagram.
- To address limitations in existing tools for handling large, dense networks and interactive exploration.
Main Methods:
- Development of CellNetVis, a web-based tool.
- Implementation of a constrained force-directed layout algorithm for network visualization.
- Integration with biological databases like Integrated Interactome System and InnateDB.
Main Results:
- CellNetVis facilitates easy display of biological networks in a cell diagram.
- The tool employs a constrained force-directed layout for network topology representation.
- It is freely available, open-source, and handles networks from various sources.
Conclusions:
- CellNetVis enables dynamic investigation of complex biological networks.
- The tool provides a consistent cell representation on the Web for enhanced visual exploration.
- Its capabilities surpass existing tools for interactive network analysis.
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