Interaction database(s) Pathway graph

The Pathway graph incorporates data from multiple interaction databases, enhancing your ability to explore and understand complex interactions. By selecting from available databases, you can tailor the graph to display specific types of interactions, such as protein-protein interactions (PPI) or pathway information linked to the nodes.

Please note that Omics Studio will try to find the shortest route between the selected pathways; if no direct connection can be found, this may result in the appearance of connector nodes, which are interacting molecules outside the selected pathways. This feature is important to discover the functional interactions and mechanisms underlying the data.

Available databases

• Uniprot PPI: Selecting this database allows you to view Protein-Protein Interactions (PPIs) as annotated in the Uniprot database. It's invaluable for exploring the dynamic interactions between proteins and understanding the protein complexes and functional pathways they participate in.

• Reactome: By choosing Reactome, the graph will display interactions and pathways curated in the Reactome database. This is particularly useful for researchers interested in viewing nodes within the context of well-documented biological pathways and processes.

💡 A good tip

Leveraging these databases can significantly enrich your analysis, providing a more nuanced view of biomolecular interactions and pathways relevant to your research.

Utilizing interaction databases

To make use of the interaction databases, simply select your database(s) of choice from the menu. Upon selection, the Pathway graph will dynamically update to include the interactions or pathway IDs associated with each node based on the chosen database. This allows for a more comprehensive analysis, offering insights into how individual nodes function within larger biological networks.