Larry Hunter wrote:
On Mon, 2006-05-08 at 22:53 -0700, AJ Chen wrote:Proposed task: Distributed self-publishing of experiments1. 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