Visualisation tools

Visualisation tools visualise dynamic 2D and 3D time-series and limit-cycle outputs from 2-loop and 3-loop Arabidopsis thaliana circadian clock models to support exploration of gene regulatory interactions and light-induced regulatory mechanisms.

Key Features:

• Dynamic Visualization: Generates moving plots that represent temporal behaviour of circadian rhythms, including time-series and limit cycles.
• Dimensional Flexibility: Supports both 2D and 3D representations of model outputs.
• Model Complexity Handling: Displays outputs from 2-loop and 3-loop Arabidopsis clock models that incorporate interlocking feedback loops.
• Prediction Rendering: Visualizes model predictions such as light-induced regulatory mechanisms and interactions among TIMING OF CAB EXPRESSION 1 (TOC1), LATE ELONGATED HYPOCOTYL (LHY), CIRCADIAN CLOCK ASSOCIATED 1 (CCA1), and GIGANTEA (GI).

Scientific Applications:

• Circadian Rhythm Analysis: Visualises and aids interpretation of rhythmic gene expression patterns in Arabidopsis thaliana.
• Model Validation and Prediction: Enables comparison of model outputs with experimental data to validate hypotheses about clock components and interactions.
• Gene Expression Dynamics: Supports study of temporal regulation of genes, including genes with distinctive regulatory patterns such as GI.
• Hypothesis Testing: Helps test hypotheses about unknown components of circadian networks by visualising predicted properties and behaviours.

Methodology:

Visualises predictions from an extended Arabidopsis circadian clock model that incorporates interlocking feedback loops informed by experimental data, including light-induced regulation and interactions between TOC1, LHY, CCA1, and GI.