AGENT

AGENT maps and analyzes gene regulatory networks (GRNs) in Arabidopsis thaliana to capture multi-level regulatory interactions between transcription factors and their target genes.

Key Features:

• Curated Gene Regulatory Networks: A comprehensive collection of curated GRNs for Arabidopsis thaliana built from high-quality experimental data, including enhanced yeast-one-hybrid screens.
• Expression Overlays: Capability to overlay gene expression data onto networks to relate regulatory interactions to expression patterns across conditions and developmental stages.
• Subnetwork Motif Scanning: Identification of recurring structural motifs within subnetworks to reveal conserved regulatory patterns and key regulatory elements.
• Network Analysis Tools: Suite of analytical methods for dissecting GRN topology and identifying critical genes involved in specific biological processes.

Scientific Applications:

• Developmental biology: Analysis of GRNs underlying flowering and seed development in Arabidopsis thaliana to identify key regulatory genes.
• Temporal multi‑TF control: Dissection of temporal multi‑transcription factor control mechanisms, exemplified by analysis of a transporter involved in nitrate signaling.
• Regulatory motif discovery: Detection of network motifs and regulatory elements that inform mechanistic hypotheses about gene regulation.

Methodology:

Constructs and curates GRNs using data from high-throughput screening technologies, including enhanced yeast-one-hybrid, and applies motif scanning and network analysis methods to those networks.