Re: Task proposal: Distributed self-publishing of experiments

[Susanna]

Larry Hunter wrote:

On Mon, 2006-05-08 at 22:53 -0700, AJ Chen wrote:

  

Proposed task: Distributed self-publishing of experiments
    

     1. Ontology for publishing projects and experiments.  There are
        some domain-specific ontologies, such as microarray experiment
        ontology, already existed today.  This task is intended to
        develop a general purpose ontology for describing projects and
        experiments in such a way that search and comparison of
        components of experiments is possible.
    

Please, please do not reinvent this wheel.  There are already several
existing ontologies for describing experiments and scientific projects.
In addition to the MGED microarray ontology (see
http://mged.sourceforge.net/ontologies/index.php) there is also the
National Cancer Institute caBIG efforts in controlled vocabularies and
common data elements (see https://cabig.nci.nih.gov/workspaces/VCDE/).
And there are several entries in OBO (the open biological ontologies
project) that are relevant, e.g. biological imaging methods and evidence
codes): 

Ref: MGED ontology
Quick note to say that MGED ontology group is working with other communities towards an Functional Genomics Investigation Ontology (FuGO), for describing the design of an investigation, the protocols and instrumentation used, the data generated and the types of analysis performed on it: http://fugo.sourceforge.net
FuGO is being developed under the guidance of an advisory board, including OBO and cBIO leaders. FuGO will also be an OBO Foundry Ontology: http://obofoundry.org/

Susanna

-- 
Susanna-Assunta Sansone, PhD

Project Coordinator, EBI
	
The European Bioinformatics Institute   email:  [EMAIL PROTECTED]
EMBL Outstation - Hinxton               direct: +44 (0)1223 494 691
Wellcome Trust Genome Campus            fax: +44 (0)1223 494 468
Cambridge CB10 1SD, UK                  

Project page: www.ebi.ac.uk/microarray/Projects/tox-nutri/index.html