Bacteriome.org

Bacteriome.org integrates protein interaction datasets, proteomic, functional genomics, and comparative genomics data to characterize protein interactions and evolutionary relationships in Escherichia coli.

Key Features:

• Integrated Interaction Datasets: Hosts three interaction datasets: a functional dataset with 3,989 interactions among 1,927 proteins; a "core" high-quality experimental dataset with 4,863 interactions between 1,100 proteins; and an "extended" experimental dataset with 9,860 interactions across 2,131 proteins.
• Visualization of Relationships: Visualizes functional, evolutionary, and structural relationships among groups of interacting proteins and enables focus on specific genes or protein complexes.
• Comparative and Expression Analysis: Supports examination of gene expression patterns and conservation across genomes to analyze design principles and evolutionary mechanisms of protein organization and function in Escherichia coli.
• Data Integration: Synthesizes locally generated interaction datasets with an existing knowledgebase and systematic large-scale studies of protein complexes and interaction networks.

Scientific Applications:

• Systems Biology: Enables network-level analysis of cellular systems and interaction architecture in Escherichia coli.
• Proteomics: Supports interpretation of proteomic interaction data and delineation of protein complex composition.
• Genomics and Comparative Genomics: Facilitates conservation analyses and comparative studies across genomes.
• Evolutionary Biology: Informs studies of evolutionary mechanisms shaping protein organization through conserved interactions and expression patterns.

Methodology:

Synthesizes data from systematic large-scale studies of protein complexes and interaction networks with functional genomic analyses by combining locally generated datasets with an existing knowledgebase.