iPATH

iPATH visualizes and maps metabolic and regulatory pathway networks by projecting functional annotations (for example KEGG) onto consolidated KEGG global maps to support analysis of genomic, metagenomic and multi-omics datasets.

Key Features:

• KEGG mapping: Projects functional annotations such as KEGG onto pathway maps for pathway-level interpretation.
• Global KEGG maps: Visualizations are based on four KEGG global maps that consolidate 158 KEGG pathway maps and 192 KEGG modules into a unified, manually curated network.
• Graph representation: Represents chemical compounds as nodes and enzymatic reactions as edges.
• Pathway coverage: Includes primary cellular metabolism, secondary metabolite synthesis, regulatory pathways, and other functional modules.
• Dataset support: Supports genomic, metagenomic and multi-omics datasets, including multiple experimental conditions and time-series data.
• Data input and customization: Accepts uploaded data and provides tools for generating customization data for pathway overlays.
• Programmatic access: Provides programmatic access for automated queries and integration.
• Trend highlighting: Highlights general metabolic trends across input datasets.

Scientific Applications:

• Functional and metabolic profiling: Map gene or protein annotations to pathways to infer functional and metabolic capabilities of (meta-)genomic datasets.
• Multi-omics trend analysis: Assess and summarize metabolic trends across multi-omics and time-series datasets.
• Pathway-level exploration: Examine presence, connectivity, and relationships of enzymes and compounds within primary, secondary and regulatory pathways.
• Module analysis: Analyze KEGG modules and consolidated pathway modules to study modular metabolic functions.

Methodology:

Projects functional annotations (e.g., KEGG) onto pathway visualizations constructed from four KEGG global maps (consolidating 158 pathway maps and 192 modules) represented as nodes for chemical compounds and edges for enzymatic reactions; accepts uploaded datasets and customization data and provides programmatic access and support for multiple conditions and time-series.