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<div>Dear All-</div>
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<div>We’ve previously mentioned the BBSRC-funded IDR project on these lists. The aim is to develop next proof-of-concepts for large-scale data publication. In particular we want to demonstrate the value of aggregating several large imaging studies into one
resource and drawing as many links as possible between them— at the level of perturbations, ontological annotations and quantitative features. Finally, we want to test the feasibility of making these data available in a virtual resource that users can use
to test their own algorithms and datasets. </div>
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<div>These are obviously quite ambitious goals, but we are making some progress. We’d like to show you all where we are, ask for comments or ideas, and maybe stimulate your own ideas how you can contribute the project or use these resources— both data and
software-- for your own work.</div>
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<div>The IDR resources are now up and available at:</div>
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<div><a href="http://idr-demo.openmicroscopy.org">http://idr-demo.openmicroscopy.org</a> Data from eleven genetic or siRNA screens from a series of published papers. All metadata submitted by authors is included in the resource.</div>
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<div><a href="http://idr-demo.openmicroscopy.org/mito">http://idr-demo.openmicroscopy.org/mito</a> Data from the Mitocheck screen (<a href="http://mitosys.org">http://mitosys.org</a>) (as of this writing, about 10% of the data loaded, more coming)</div>
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<div><a href="http://idr-demo.openmicroscopy.org/tara">http://idr-demo.openmicroscopy.org/tara</a> Data (images and metadata) from the Tara Oceans study (<a href="http://oceans.taraexpeditions.org/en">http://oceans.taraexpeditions.org/en</a>/) (as of this writing,
about 45% of the data loaded, more coming)</div>
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<div>These studies are available from different URLs as this helped us during the data loading phase.</div>
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<div>All of these are available via the “vanilla” OMERO web interface. There is no question that this interface isn’t customised for this type of use case, and the datasets “stretch” and in some cases break the design of this UI. We’ll be doing work on the
UI in due course. Our goal was to get the data integration done and have a foundation for designing about a virtual analysis resource.</div>
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<div>Again, any thoughts or comments welcome. Obviously if you know of datasets that would be candidates for this resource, please do let us know. The principles for datasets we want to include are written up in the
<a href="http://www.eurobioimaging.eu/content-news/euro-bioimaging-elixir-image-data-strategy">
Euro-BioImaging/Elixir Data Strategy</a>.</div>
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<div>Thanks again for your support and comments.</div>
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<div>Cheers,</div>
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<div>Jason</div>
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<p class="MsoNormal" style="margin: 0in 0in 0.0001pt; color: rgb(40, 40, 40);"><span style="font-size: 12px;"><span style="color: black;">Centre for Gene Regulation & Expression | Open Microscopy Environment | University of Dundee </span><span style="color: black;"></span></span></p>
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<p class="MsoNormal" style="margin: 0in 0in 0.0001pt; color: rgb(40, 40, 40);"><span style="font-size: 12px;"><span style="color: black;">email: <a href="mailto:j.swedlow@dundee.ac.uk" target="_blank" style="color: rgb(149, 79, 114);"><span style="color: blue;">j.swedlow@dundee.ac.uk</span></a></span><span style="color: black;"></span></span></p>
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<p class="MsoNormal" style="margin: 0in 0in 0.0001pt; color: rgb(40, 40, 40);"><span style="font-size: 12px;"><span style="color: black;">Web: </span><span style="color: black;"></span><span style="color: rgb(0, 0, 0);"><a href="http://www.lifesci.dundee.ac.uk/people/jason-swedlow">http://www.lifesci.dundee.ac.uk/people/jason-swedlow</a> </span></span></p>
<p class="MsoNormal" style="margin: 0in 0in 0.0001pt; color: rgb(40, 40, 40);"><span style="font-size: 12px;"><span style="color: black;">Open Microscopy Environment: <span style="color: blue;"><a href="http://openmicroscopy.org/" target="_blank" style="color: rgb(149, 79, 114);">http://openmicroscopy.org</a></span></span></span></p>
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<span style="font-size:10pt;">The University of Dundee is a registered Scottish Charity, No: SC015096</span>
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