As a software product for use by researchers in several domains, Bioscholar is intended to serve as a vehicle for collaboration with biologists and with fellow bioinformatics developers. At present, the system has been applied to the following biomedical domains via collaboration with the following communities.
  1. Systems Biology Cancer Pathways (The DARPA 'Big Mechanisms' community including Peter Sorger at Harvard, Larry Hunter at Colorado, Andrey Rzhetsky at Chicago)
  2. Systems level neuroscience (Larry Swanson and Rick Thompson at USC, Arshad Khan at UTEP)
  3. Funcational Magenetic Resonance Imaging (Jessica Turner at the MIND Research Network) 
  4. Primate HIV Activation Studies (Robert Murnane at U. Washington, Brian Foley at Los Alamos National Laboratory)
  5. MRI Infusion Studies (Ken Kubota peviously at the Kinetics Foundation, now at Michael J Fox Foundation)

KEfED modeling within the BioScholar system provides a point of interaction with colleagues in bioinformatics groups (necessary for interoperability and shared tool construction)

  1. The ISA-Tab format is an emerging de-facto standard for management of experimental metadata, developed and used by a growing number of communities, under the We are actively collaborating with core ISA team to link the two modeling approaches to foster methods of data sharing and ontology development. 
  2. The Ontology for Biomedical Investigation (OBI) is a community effort to develop a detailed OBO-foundry ontology for descriptions of  experimental methods. We aim to make KEfED consistent with the OBI model (and even have the goal of BioScholar providing a curation methodology for OBI).
  3. Yogo is a no-SQL data repository for scientific data under development by Gwen Jacobs' group at U. Montana. We have developed the KEfED editor as an HTML plugin for the Yogo system.
  4. Dataverse is a data sharing architecture that we are investigating as a platform that could support the KEfED modeling system as a plugin for use by Dataverse users.