Email updates

Keep up to date with the latest news and content from Genome Biology and BioMed Central.

Open Access Highly Accessed Software

The Open Microscopy Environment (OME) Data Model and XML file: open tools for informatics and quantitative analysis in biological imaging

Ilya G Goldberg1, Chris Allan2, Jean-Marie Burel2, Doug Creager3, Andrea Falconi2, Harry Hochheiser1, Josiah Johnston1, Jeff Mellen3, Peter K Sorger3 and Jason R Swedlow2*

Author Affiliations

1 Image Informatics and Computational Biology Unit, Laboratory of Genetics National Institute on Aging, National Institutes of Health, 333 Cassell Drive, Baltimore, MD 21224, USA

2 Division of Gene Regulation and Expression, University of Dundee, Dow Street, Dundee DD1 5EH, Scotland, UK

3 Department of Biology, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA

For all author emails, please log on.

Genome Biology 2005, 6:R47  doi:10.1186/gb-2005-6-5-r47

Published: 3 May 2005

Abstract

The Open Microscopy Environment (OME) defines a data model and a software implementation to serve as an informatics framework for imaging in biological microscopy experiments, including representation of acquisition parameters, annotations and image analysis results. OME is designed to support high-content cell-based screening as well as traditional image analysis applications. The OME Data Model, expressed in Extensible Markup Language (XML) and realized in a traditional database, is both extensible and self-describing, allowing it to meet emerging imaging and analysis needs.