Caleydo

Caleydo visualizes biomolecular data to elucidate interdependencies among multiple datasets and to reveal relationships between gene expression, biological pathways, and gene functions.

Key Features:

• 3D Visualization: Places biological pathways and gene expression data within a 3D scene to visually connect selected entities such as genes.
• Interactive Exploration: Supports interactive, dynamic exploration of gene expression in relation to biological pathways and mappings between genes and pathway components.
• Cross-database Integration: Integrates data from multiple databases to enable cross-database pathway exploration and comparison of altered gene expression across conditions.
• Tabular Data and Clustering Support: Loads tabular data with groupings or clusterings to relate multiple datasets and gene sets.

Scientific Applications:

• Pathway-centered Gene Expression Analysis: Analyzes and interprets gene expression within the context of biological pathways and gene functions.
• Disease Mechanism Investigation: Assists investigation of molecular mechanisms underlying diseases by visualizing interactions of gene components and pathway perturbations.
• Biomarker and Therapeutic Target Identification: Supports identification of potential biomarkers or therapeutic targets by revealing altered expression patterns and pathway associations.

Methodology:

Loads tabular data with groupings or clusterings and places pathways and gene expression data in a 3D scene to map genes onto pathway representations and explore relationships across datasets via interactive, dynamic visualization.