Fig 1.
The different PWB metanode types are strung together to form workflows.
A. In this example, the prompt type of metanode takes a gene as the input; then the resolver metanode uses the GTEx API to obtain the expression of the input gene from across human tissues. Finally, a view metanode visualizes the contents returned from the API as a bar chart. B. Screenshot from the executed workflow in the PWB platform.
Fig 2.
Network visualization of the PWB knowledge resolution graph (KRG).
The network of connected metanodes is interactive and can be explored from the user interface.
Fig 3.
The landing page of the PWB UI provides access to a collection of prompt metanodes to begin constructing workflows.
Fig 4.
The structure of the Persistent Process Resolution Graph (FPPRG) Database.
The FPPRG database stores the data that flows through workflows in four tables. The first table is a dependency graph of each constructed step of a workflow. The second table stores the sequential order of a workflow. The third table is a Result record, and the 4th table is a Data record.
Table 1.
List of published use cases available for re-execution and expansion on the PWB platform. *The base URL for the DOIs is “10.48546/WORKFLOWHUB.WORKFLOW.”.
Fig 5.
Published workflows are curated workflows that are listed on a dedicated page that catalogs these in a table.
Each workflow entry can be expanded to obtain more information about the workflow and to launch the workflow within the PWB platform in report mode.
Table 2.
Ranked list of targets identified by TargetRanger to be highly expressed in the tumor sample and lowly expression across normal tissues from GTEx.
Fig 6.
SuperVenn diagram to visualize the overlap between sets of genes that are up and down regulated by aspirin and warfarin based on LINCS L1000 signatures, as well as knockout mouse, HPO, and GWAS phenotypes associated with the term “bleeding”.
The permanent URL for a description of this workflow is: https://doi.org/10.48546/WORKFLOWHUB.WORKFLOW.1237.3.