L4Workgroups

=BioPAX Level 4 Workgroups=

Five Level 4 Workgroups were suggested at the November 2009 meeting in NYC.

The option of an extension to BioPAX to deliver layout (x,y coordinates only). A complete visualization extension for BioPAX would be a duplication of work and eventually SBGN will provide visualization exchange. In the interim, a workgroup could formulate a simple format for pathway visualization. This group would coordinate with SBGN. Works toward extending BioPAX e.g. to enable the capture and exchange of generic reactions and generic pathways and extensions to the entityreference class. Semantic web community wish list including Linked Data Project, Linking to other ontologies and ontology mapping, additional controlled vocabularies and architecture of controlled vocabularies are all areas where BioPAX needed improvement. Develop rules and best practices for data and documenting and deliver these into the BioPAX validator. The Pathways and Models Workgroup deals with the intersection of pathways and models. By pathway, we mean any connected system of interactions or processes that can be expressed by BioPAX. By model, we mean any data structure used to compute predictions. This includes relationships between BioPAX and quantitative data, simulations, SBO, SBML, CellML and simulators like the Virtual Cell.
 * Visualization and exchange Status: Started - Point of Contact Martijn Van Iersel
 * Semantics: Generics/polymers/logic/ Status: Initiated - Emek Demir
 * Semantic web/linking/CVs  Status: Started - Point of Contact Andrea Splendiani
 * Validation and best practices Status: Initiated - Point of Contact Igor Rodchenkov
 * Pathways and Models Status: Active - Point of Contact Oliver Ruebenacker