SyBLaRS

SyBLaRS provides automatic layout, rendering, and graph-theoretical analysis of biological pathway maps to facilitate visualization and computational interrogation of pathways represented in SBGNML, SBML, GraphML, and JSON.

Key Features:

• Automatic Layout: Automatic layout capabilities for biological pathway maps, available in on-demand or batch processing modes.
• Customized Rendering: Rendering to raster and scalable vector formats for construction of tailored images from pathway maps.
• Graph-Theoretical Analysis: Calculation and highlighting of graph-theoretical properties within pathway graphs and application of novel graph algorithms to transform a specified set of objects into a minimal pathway of interest.
• Format Support: Input and output support for SBGNML, SBML, GraphML, and JSON formats.

Scientific Applications:

• Systems Biology: Visualization and analysis of systems biology pathway maps to support interpretation of network structure and dynamics.
• Genomics: Representation and inspection of gene-centric pathways and interactions encoded in SBGNML/SBML for genomic analyses.
• Bioinformatics: Computational interrogation of relational biological data and extraction of pathway substructures using graph algorithms.

Methodology:

Automatic layout algorithms, rendering to raster and scalable vector formats, computation and highlighting of graph-theoretical properties, and application of novel graph algorithms for minimal-pathway extraction; supports on-demand and batch processing and SBGNML, SBML, GraphML, and JSON formats.