BioPAX (15) was designed to facilitate exchange of pathway information and is amenable to representing relationships from the scientific literature.
The formalised depiction of biological pathways is increasingly recognised as a crucial requirement for the exchange of pathway data, modelling of their activity and systems level interpretation of biological data.
In this system, synthesis of several amino acids including phenylalanine, arginine, and isoleucine appears to depend on exchange of pathway intermediates and successive reactions that are carried out by different community members.
To address this problem, there have been a number of efforts to standardize the exchange of pathway and protein interaction data from disparate sources, including PSICQUIC, CellML and BioPAX.
This is unlike the Biological Pathway Exchange (BioPAX), which focuses on the integration and exchange of biological pathway data across a large array of existing pathway resources.
Projects like BioPAX [ 49], which aspire to the integration and exchange of biological pathway data, will greatly assist future pathway analysis.
In contrast, BioPAX, 21 another language frequently used to model knowledge, focuses on the integration and data exchange of biological pathway information across a large array of existing pathway resources.
Second, methods for the rapid assembly and exchange of sugar pathway genes into functional operons are described.
In this sense, the "hub" pathways such as those involved in positive regulation of RNA elongation and histone exchange are good examples of pathways with multifunction effects.
Since Chem2Bio2OWL initially was fully based on BioPAX which is originally designed for data integration and data exchange of the biological pathway data and has been widely used, alignment with other basic ontologies needs a collaborative work with BioPAX as well as OBO community.
