CorNet Maize

CorNet Maize integrates heterogeneous genomic and interaction data to construct and analyze coexpression, protein-protein interaction, and regulatory networks in maize.

Key Features:

• Data Integration: Integrates heterogeneous data types including microarray expression datasets and regulatory interaction datasets and incorporates transcription factor (TF) interactions for combined analyses with coexpression and PPI data.
• Network Construction: Constructs coexpression networks from predefined or user-defined groups of microarray experiments and builds interaction networks from PPI data including gene-gene associations from AraNet and newly identified PPIs.
• Search and Visualization: Supports construction of networks centered on multiple input genes or proteins and visualizes networks and associated evidence using Cytoscape.
• Functional Annotation Resources: Retrieves literature, phenotypes, Plant Ontology terms, and biological pathway annotations to link network components to existing knowledge.

Scientific Applications:

• Coexpression Analysis: Identify genes with similar expression patterns across conditions or tissues in maize to infer regulatory relationships and candidate genes for biological processes.
• PPI Network Exploration: Investigate protein-protein interactions in maize using AraNet-derived associations and newly identified PPIs to study cellular functions and pathways.
• Regulatory Network Analysis: Explore transcription factor datasets integrated with coexpression and PPI data to elucidate transcriptional control mechanisms in maize.

Methodology:

Integrates microarray expression datasets and regulatory interaction datasets; incorporates TF interactions with coexpression and PPI tools; constructs coexpression networks from predefined or user-defined microarray experiment groups; analyzes gene-gene associations from AraNet and newly identified PPIs; centers network construction on multiple input genes or proteins; visualizes networks and supporting evidence using Cytoscape; retrieves literature, phenotypes, Plant Ontology terms, and biological pathway annotations.