Human usability of web searches that return one or more individual reactions, and of downloadable PDF files with text descriptions of all reactions and subpathways in a pathway is improved by providing a diagram of each reaction that shows its participants (inputs, outputs, regulators and catalyst) laid out in a conventional left-to-right mode, localized within the appropriate cellular compartments. When a reaction involves more than one compartment, e.g., signal transduction or transport, the compartments are correctly located with respect to one another and the participating entities. A pilot version of a script to generate such diagrams has been deployed on our web site (Figure 4). The resulting images and their associated data can be exported in a variety of formats.
