From: A taxonomy of visualization tasks for the analysis of biological pathway data
Category | Example task |
---|---|
Attribute tasks | Â |
(A1) Multivariate | Find all up-regulated genes in a biological pathway. Integrate results of a laboratory experiment into existing protein-protein interaction networks. |
(A2) Comparison | Compare a biological pathway to a pathway with the same functionality in a reference species. |
(A3) Provenance | Determine which studies provides the evidence for a link between two genes. |
(A4) Uncertainty | Understand which pathway components have the strongest empirical evidence relationships. |
Relationship tasks | Â |
(R1) Attributes | Find all translocations of entities in a given biological pathway. |
(R2) Direction | Find the products or output of a biochemical reaction. |
(R3) Grouping | Expand a module entity to include all child-entities in the visualization. |
(R4) Causality | Find all genes downstream of the currently selected entity, which may be affected by a change in regulation. |
(R5) Feedback | Identify potential feedback loops in gene regulation. |
Modification tasks | Â |
(M1) Annotate | Update out-of date-information in a pathway data set, or create a personalized pathway relevant to a specialized research topic. |
(M2) Curate | Identify errors and update historical data. |