Open Microscopy Environment - Tagged Image File Format
Abbreviation: OME-TIFF
Homepage http://www.openmicroscopy.org/site/support/ome-model/ome-tiff/
Countries that developed this resource France , Italy , United Kingdom , United States
Created in 2007
Taxonomic range
Knowledge Domains
Subjects
User-defined Tags
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: Feb. 7, 2021, 7:56 p.m.; Last accessed: Oct 22 2021 5:48 p.m.
Record updated: Feb. 6, 2021, 9:59 a.m. by The FAIRsharing Team.
| Mailing List | OME-TIFF Mailing List |
| online documentation | Further Documentation |
Additional Information
| Contact | Jason Swedlow ORCID |
| OMERO client-server software | http://www.openmicroscopy.org/info/omero |
No XSD schemas defined
Conditions of Use
Applies to: Data use- BSD-3-Clause License (Modified BSD License) (New BSD License)
- Creative Commons Attribution 4.0 International (CC BY 4.0)
Data Release
| Specification | https://docs.openmicroscopy.org/ome-model/6.2.2/ome-tiff/specification ... |
Metadata matters: access to image data in the real world
Melissa Linkert, Curtis T. Rueden, Chris Allan et al.
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
Reporting Guidelines
Terminology Artifacts
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No identifier schema standards defined
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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.
Library of Integrated Network-Based Cellular Signatures Data Portal
The LINCS Data Portal provides a unified interface for searching LINCS dataset packages and reagents. LINCS data are being made openly available as a community resource through a series of data releases, so as to enable scientists to address a broad range of basic research questions and to facilitate the identification of biological targets for new disease therapies. LINCS datasets consist of assay results from cultured and primary human cells treated with bioactive small molecules, ligands such as growth factors and cytokines, or genetic perturbations. Many different assays are used to monitor cell responses, including assays measuring transcript and protein expression; cell phenotype data are captured by biochemical and imaging readouts. Assays are typically carried out on multiple cell types, and at multiple timepoints; perturbagen activity is monitored at multiple doses.
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
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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Record Maintainer
Funds
Biotechnology and Biological Sciences Research Council (BBSRC), UK (Government body)
The Wellcome Trust, UK (Charitable foundation)
Maintains
Grant Number(s)
095931/Z/11/Z (The Wellcome Trust, UK)
BB/G022585/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
BB/L024233/1 (Biotechnology and Biological Sciences Research Council (BBSRC), UK)
