network graph
Definition
A network graph is a mathematical structure consisting of nodes (vertices) and edges (links) that represent relationships between entities. In life sciences, network graphs model complex biological systems where nodes represent biomolecules (genes, proteins, metabolites) or biological concepts (diseases, phenotypes, pathways), and edges represent interactions, correlations, or regulatory relationships. Network graphs enable researchers to visualize high-dimensional data, identify key regulatory hubs, discover functional modules, and understand emergent properties of biological systems. They serve as foundational tools for systems biology, integrating multi-omics data and revealing patterns invisible in traditional linear analyses.
Visualize network graph in Nodes Bio
Researchers use Nodes Bio to construct and explore network graphs from experimental data, literature mining, or public databases. The platform enables interactive visualization of protein-protein interactions, gene regulatory networks, and disease-gene associations. Users can identify central nodes, detect communities, overlay expression data, and trace causal pathways. Nodes Bio's network graph capabilities support hypothesis generation by revealing unexpected connections and prioritizing targets for experimental validation.
Visualization Ideas:
- Protein-protein interaction networks with disease-associated proteins highlighted
- Multi-layer networks integrating gene regulation, metabolic pathways, and phenotypic outcomes
- Temporal network graphs showing dynamic changes in signaling cascades during drug treatment
Example Use Case
A cancer researcher investigating resistance mechanisms to targeted therapy constructs a network graph integrating protein interactions, phosphorylation events, and gene expression changes. By visualizing the network in Nodes Bio, they identify a previously overlooked kinase that becomes highly connected upon drug treatment. The network reveals this kinase activates multiple bypass signaling pathways, explaining resistance. This hub protein becomes a promising combination therapy target, validated through subsequent knockout experiments and patient sample analysis.