Open Microscopy Environment - Tagged Image File Format
Created in 2007
How to cite this record FAIRsharing.org: OME-TIFF; Open Microscopy Environment - Tagged Image File Format; DOI: https://doi.org/10.25504/FAIRsharing.cq8tg2; Last edited: May 20, 2019, 10:19 a.m.; Last accessed: Dec 14 2019 10:38 a.m.
Record updated: May 20, 2019, 10:18 a.m. by The FAIRsharing Team.
Edits to 'https://fairsharing.org/FAIRsharing.cq8tg2' by 'sbesson' at 08:16, 20 May 2019 (approved): 'yearOfCreation' has been modified: Before: 2000 After: 2007
Edits to 'https://fairsharing.org/FAIRsharing.cq8tg2' by 'The FAIRsharing Team' at 21:41, 30 Oct 2018 (approved): 'domains' has been modified: Before: Image Life Science After: Biomedical Science Image Life Science Microscopy Resource metadata Added: Biomedical Science Microscopy Resource metadata Removed: 'miriam_id' has been modified: Before: None After:
No XSD schemas defined
Conditions of UseApplies to: Data use
- BSD-3-Clause License (Modified BSD License) (New BSD License)
- Creative Commons Attribution 4.0 International (CC BY 4.0)
Metadata matters: access to image data in the real world
Melissa Linkert, Curtis T. Rueden, Chris Allan, Jean-Marie Burel, Will Moore, Andrew Patterson, Brian Loranger, Josh Moore, Carlos Neves, Donald MacDonald, Aleksandra Tarkowska, Caitlin Sticco, Emma Hill, Mike Rossner, Kevin W. Eliceiri, and Jason R. Swedlow
The Journal of Cell Biology 2010
The Open Microscopy Environment (OME) Data Model and XML File: Open Tools for Informatics and Quantitative Analysis in Biological Imaging
Goldberg, I., C. Allan, J.-M. Burel, D. Creager, A. Falconi, H. Hochheiser, J. Johnston, J. Mellen, P.K. Sorger, and J.R. Swedlow.
Genome Biology 2005
No guidelines defined
No semantic standards defined
Models and Formats
No identifier schema standards defined
No metrics standards defined
The JCB DataViewer is an image hosting and visualization platform for original microscopy image datasets associated with articles published in The Journal of Cell Biology, a peer-reviewed journal published by The Rockefeller University Press. The JCB DataViewer can host multidimensional fluorescence microscopy images, 3D tomogram data, very large (gigapixel) images, and high content imaging screens. Images are presented in an interactive viewer, and the "scores" from high content screens are presented in interactive graphs with data points linked to the relevant images. The JCB DataViewer uses the Bio-Formats library to read over 120 different imaging file formats and convert them to the OME-TIFF image data standard.
OMERO is client-server software for visualization, management and analysis of biological microscope images.
Image Data Resource
IDR is a prototype platform for publishing, mining and integrating bioimaging data at scale, following the Euro-BioImaging/ELIXIR imaging strategy using the OMERO and Bio-Formats open source software built by the Open Microscopy Environment. Deployed on an OpenStack cloud running on the EMBL-EBI’s Embassy resource, it includes image data linked to independent studies from genetic, RNAi, chemical, localisation and geographic high content screens, super-resolution microscopy, and digital pathology.
Curie Image Database
In addition to data used in on-going collaborations, this database host images from France Bio Imaging microscopy facility with public access either associated to publications, either that make interest from an image processing point of view (such as challenges for developpers or for use in metrology). This resource requires a log in account, however some projects are available with a guest account.
Liverpool CCI OMERO
A repository of image / SPM data to support users of the Centre for Cell Imaging, University of Liverpool.
Natural History Museum Data Portal
The British natural history collection is one of the most important in the world, documenting 4.5 billion years of life, the Earth and the solar system. Almost all animal, plant, mineral and fossil groups are represented. The portal's main dataset consists of specimens from the Museum's collection database, with over 4 million records from the Museum’s Palaeontology, Mineralogy, Botany, Entomology and Zoology collections.
Blackfynn Discover is a public resource for accessing large public Neuroscience datasets. Blackfynn Discover was developed through grants from the NIH NIDA, NIH CommonFund, DARPA, and others to provide a sustainable solution for fostering collaboration in the Neurosciences.
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Biotechnology and Biological Sciences Research Council (BBSRC), UK (Government body)
The Wellcome Trust, UK (Charitable foundation)