Bacnet

Bacnet provides a Java-based platform for building multi-omics websites that integrate genomic, transcriptomic, and proteomic data and support co-expression network analysis and homolog presence exploration for studies such as functional genomics and comparative genomics.

Key Features:

• Interactive Genome Viewer: Visualizes genomic features, coordinates, and annotations across genomes.
• Expression and Protein Atlas: Integrates and displays gene expression and protein abundance data.
• Co-Expression Network Analysis Interface: Includes tools for analyzing gene co-expression networks and relationships.
• Homolog Presence Exploration Interface: Provides information on homologous gene presence across species for comparative analyses.

Scientific Applications:

• Non-reference organism analysis: Enables integration and presentation of omics data for organisms lacking reference resources.
• Functional genomics: Supports investigation of gene function through integrated genomic, transcriptomic, and proteomic data.
• Transcriptomics: Facilitates visualization and analysis of gene expression datasets.
• Proteomics: Facilitates integration and interpretation of protein abundance and related molecular data.
• Comparative genomics: Supports cross-species comparisons using homolog presence data and genomic annotations.

Methodology:

Implemented in Java and built on the Eclipse RAP and Eclipse RCP frameworks.