KEGGParser

KEGGParser parses and repairs KGML (KEGG Graph Markup Language) pathway maps to enable accurate representation and analysis of KEGG pathways within the MATLAB environment.

Key Features:

• KGML parsing and editing: Parses KGML files and provides semiautomatic fixing of pathway elements to address missing or inconsistent information.
• Visualization: Generates visual representations of KEGG pathway maps within MATLAB.
• Pathway analysis integration: Enables in-depth pathway analysis by leveraging MATLAB's computational functions.
• Cross-platform compatibility: Supports use in Scilab in addition to MATLAB.

Scientific Applications:

• Metabolic pathway analysis: Enables exploration of metabolic networks and identification of key regulatory nodes and biochemical interactions.
• Drug discovery and development: Supports identification of potential drug targets by analyzing pathways related to disease mechanisms.
• Genomic studies: Facilitates integration of genomic data with KEGG pathway information to analyze gene function and regulation.

Methodology:

Interprets KGML, which are XML-structured descriptions of KEGG pathways, and applies semiautomatic corrections to reconcile discrepancies between KGML data and the static pathway images.