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‎_sources/authors/maximilian_e..md‎

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# Maximilian e. (4)
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# Maximilian e. (5)
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## Easy creation of your Bioimage Data Management Plan
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Müller, Maximilian E.
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[https://doi.org/10.5281/zenodo.18957947](https://doi.org/10.5281/zenodo.18957947)
2020

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---
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## From Microscope to Repository: Managing Image Data with OMERO
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Müller, Maximilian E.
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Published 2026-05-05
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Licensed CC-BY-4.0
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This presentation was developed by NFDI4BIOIMAGE and held online as part of the CRC 1551 Data Week on 05. May 2026.
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It provides a general introduction to research data management (RDM) and public data deposition and highlights their specific relevance in research.
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Furthermore, it introduces OMERO as a platform for structured data storage, metadata management, and collaborative access and introduces repositories for imaging data.
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The slides are intended for educational use and may serve as a resource for teaching and training in research data management within the life sciences.
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We acknowledge funding by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under the National Research Data Infrastructure – NFDI 46/1 – 501864659.
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[https://zenodo.org/records/20039402](https://zenodo.org/records/20039402)
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[https://doi.org/10.5281/zenodo.20039402](https://doi.org/10.5281/zenodo.20039402)
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## Introduction to research data management in bioimaging

‎_sources/authors/müller.md‎

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# Müller (4)
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# Müller (5)
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## Easy creation of your Bioimage Data Management Plan
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Müller, Maximilian E.
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[https://doi.org/10.5281/zenodo.18957947](https://doi.org/10.5281/zenodo.18957947)
2020

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---
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## From Microscope to Repository: Managing Image Data with OMERO
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Müller, Maximilian E.
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Published 2026-05-05
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Licensed CC-BY-4.0
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This presentation was developed by NFDI4BIOIMAGE and held online as part of the CRC 1551 Data Week on 05. May 2026.
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It provides a general introduction to research data management (RDM) and public data deposition and highlights their specific relevance in research.
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Furthermore, it introduces OMERO as a platform for structured data storage, metadata management, and collaborative access and introduces repositories for imaging data.
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The slides are intended for educational use and may serve as a resource for teaching and training in research data management within the life sciences.
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We acknowledge funding by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under the National Research Data Infrastructure – NFDI 46/1 – 501864659.
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[https://zenodo.org/records/20039402](https://zenodo.org/records/20039402)
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[https://doi.org/10.5281/zenodo.20039402](https://doi.org/10.5281/zenodo.20039402)
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## Introduction to research data management in bioimaging

‎_sources/domain/doi.org.md‎

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# Doi.org (416)
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# Doi.org (418)
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## "Management of Microscopy Image Data: An overview of OMERO, BioImage Archive and Image Data Resource" 2025 @ Uni Leipzig
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Vellutini, Bruno C., Cuenca, Marina B., Abhijeet Krishna, Alicja Szałapak, Modes, Carl D., Pavel Tomančák
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[https://doi.org/10.5281/zenodo.15047849](https://doi.org/10.5281/zenodo.15047849)
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---
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## Building Research Infrastructure Communities That Last
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Carole Goble
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Published 2026-05-01
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Licensed CC-BY-4.0
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Invited keynote for 
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19th OME Community Meeting, Düsseldorf, Germany, 28-30 April 2026, https://www.openmicroscopy.org/events/ome-community-meeting-2026.html
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[https://zenodo.org/records/19949157](https://zenodo.org/records/19949157)
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[https://doi.org/10.5281/zenodo.19949157](https://doi.org/10.5281/zenodo.19949157)
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---
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## Building a FAIR image data ecosystem for microscopy communities
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[https://doi.org/10.5281/zenodo.13331351](https://doi.org/10.5281/zenodo.13331351)
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---
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## From Microscope to Repository: Managing Image Data with OMERO
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Müller, Maximilian E.
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Published 2026-05-05
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Licensed CC-BY-4.0
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This presentation was developed by NFDI4BIOIMAGE and held online as part of the CRC 1551 Data Week on 05. May 2026.
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It provides a general introduction to research data management (RDM) and public data deposition and highlights their specific relevance in research.
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Furthermore, it introduces OMERO as a platform for structured data storage, metadata management, and collaborative access and introduces repositories for imaging data.
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The slides are intended for educational use and may serve as a resource for teaching and training in research data management within the life sciences.
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We acknowledge funding by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under the National Research Data Infrastructure – NFDI 46/1 – 501864659.
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[https://zenodo.org/records/20039402](https://zenodo.org/records/20039402)
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[https://doi.org/10.5281/zenodo.20039402](https://doi.org/10.5281/zenodo.20039402)
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## From Paper to Pixels: Navigation through your Research Data - presentations of speakers

‎_sources/domain/zenodo.org.md‎

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# Zenodo.org (404)
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# Zenodo.org (406)
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## "Management of Microscopy Image Data: An overview of OMERO, BioImage Archive and Image Data Resource" 2025 @ Uni Leipzig
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Vellutini, Bruno C., Cuenca, Marina B., Abhijeet Krishna, Alicja Szałapak, Modes, Carl D., Pavel Tomančák
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[https://doi.org/10.5281/zenodo.15047849](https://doi.org/10.5281/zenodo.15047849)
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---
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## Building Research Infrastructure Communities That Last
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Carole Goble
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Published 2026-05-01
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Licensed CC-BY-4.0
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Invited keynote for 
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19th OME Community Meeting, Düsseldorf, Germany, 28-30 April 2026, https://www.openmicroscopy.org/events/ome-community-meeting-2026.html
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[https://zenodo.org/records/19949157](https://zenodo.org/records/19949157)
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[https://doi.org/10.5281/zenodo.19949157](https://doi.org/10.5281/zenodo.19949157)
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## Building a FAIR image data ecosystem for microscopy communities
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[https://doi.org/10.5281/zenodo.13331351](https://doi.org/10.5281/zenodo.13331351)
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---
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## From Microscope to Repository: Managing Image Data with OMERO
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Müller, Maximilian E.
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Published 2026-05-05
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Licensed CC-BY-4.0
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This presentation was developed by NFDI4BIOIMAGE and held online as part of the CRC 1551 Data Week on 05. May 2026.
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It provides a general introduction to research data management (RDM) and public data deposition and highlights their specific relevance in research.
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Furthermore, it introduces OMERO as a platform for structured data storage, metadata management, and collaborative access and introduces repositories for imaging data.
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The slides are intended for educational use and may serve as a resource for teaching and training in research data management within the life sciences.
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We acknowledge funding by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under the National Research Data Infrastructure – NFDI 46/1 – 501864659.
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[https://zenodo.org/records/20039402](https://zenodo.org/records/20039402)
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[https://doi.org/10.5281/zenodo.20039402](https://doi.org/10.5281/zenodo.20039402)
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## From Paper to Pixels: Navigation through your Research Data - presentations of speakers

‎_sources/licenses/cc-by-4.0.md‎

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# Cc-by-4.0 (496)
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# Cc-by-4.0 (498)
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## "Management of Microscopy Image Data: An overview of OMERO, BioImage Archive and Image Data Resource" 2025 @ Uni Leipzig
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Vellutini, Bruno C., Cuenca, Marina B., Abhijeet Krishna, Alicja Szałapak, Modes, Carl D., Pavel Tomančák
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[https://doi.org/10.5281/zenodo.14909526](https://doi.org/10.5281/zenodo.14909526)
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## Building Research Infrastructure Communities That Last
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Carole Goble
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Published 2026-05-01
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Licensed CC-BY-4.0
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Invited keynote for 
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19th OME Community Meeting, Düsseldorf, Germany, 28-30 April 2026, https://www.openmicroscopy.org/events/ome-community-meeting-2026.html
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[https://zenodo.org/records/19949157](https://zenodo.org/records/19949157)
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[https://doi.org/10.5281/zenodo.19949157](https://doi.org/10.5281/zenodo.19949157)
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## Building a FAIR image data ecosystem for microscopy communities
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[https://focalplane.biologists.com/2025/08/05/from-click-to-code-reproducibility-in-bio-image-analysis/](https://focalplane.biologists.com/2025/08/05/from-click-to-code-reproducibility-in-bio-image-analysis/)
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---
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## From Microscope to Repository: Managing Image Data with OMERO
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Müller, Maximilian E.
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Published 2026-05-05
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Licensed CC-BY-4.0
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This presentation was developed by NFDI4BIOIMAGE and held online as part of the CRC 1551 Data Week on 05. May 2026.
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It provides a general introduction to research data management (RDM) and public data deposition and highlights their specific relevance in research.
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Furthermore, it introduces OMERO as a platform for structured data storage, metadata management, and collaborative access and introduces repositories for imaging data.
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The slides are intended for educational use and may serve as a resource for teaching and training in research data management within the life sciences.
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We acknowledge funding by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under the National Research Data Infrastructure – NFDI 46/1 – 501864659.
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[https://zenodo.org/records/20039402](https://zenodo.org/records/20039402)
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[https://doi.org/10.5281/zenodo.20039402](https://doi.org/10.5281/zenodo.20039402)
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## From Paper to Pixels: Navigation through your Research Data - presentations of speakers

‎_sources/readme.md‎

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# NFDI4BioImage Training Materials
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This Jupyter Book contains 924 links to training materials in the context Research Data Management for Bioimaging / Microscopy Data and Bio-image Analysis and has been updated 2026-05-05.
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This Jupyter Book contains 926 links to training materials in the context Research Data Management for Bioimaging / Microscopy Data and Bio-image Analysis and has been updated 2026-05-12.
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This is a **preliminary** / **experimental** search index allowing us to explore how such a database could look like. We follow the principle [_release early, release often_](https://en.wikipedia.org/wiki/Release_early,_release_often) and aim at having a functional prototype of the search index at any time. We will use this resource to
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* explore what kind of meta-data we need to collect for training materials
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We trace download statistics of some Microscopy / Research Data Management / BioImage Analysis records on [zenodo.org](https://zenodo.org). These were the three most downloaded records recently observed.
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1. [Bio-image Data Science Lectures 2025 @ Uni Leipzig / ScaDS.AI](https://zenodo.org/records/15546497) by "Haase, Robert" (771 downloads), licensed [CC-BY 4.0](https://creativecommons.org/licenses/by/4.0/)
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1. [100,000 histological images of human colorectal cancer and healthy tissue](https://zenodo.org/records/1214456) by "Kather, Jakob Nikolas and Halama, Niels and Marx, Alexander" (854 downloads), licensed [CC-BY 4.0](https://creativecommons.org/licenses/by/4.0/)
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2. [Bio-image Data Science Lectures 2025 @ Uni Leipzig / ScaDS.AI](https://zenodo.org/records/15793536) by "Haase, Robert" (771 downloads), licensed [CC-BY 4.0](https://creativecommons.org/licenses/by/4.0/)
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2. [Bio-image Data Science Lectures 2025 @ Uni Leipzig / ScaDS.AI](https://zenodo.org/records/15546497) by "Haase, Robert" (210 downloads), licensed [CC-BY 4.0](https://creativecommons.org/licenses/by/4.0/)
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3. [Bio-image Data Science Lectures 2025 @ Uni Leipzig / ScaDS.AI](https://zenodo.org/records/15858127) by "Haase, Robert" (771 downloads), licensed [CC-BY 4.0](https://creativecommons.org/licenses/by/4.0/)
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3. [Bio-image Data Science Lectures 2025 @ Uni Leipzig / ScaDS.AI](https://zenodo.org/records/15793536) by "Haase, Robert" (210 downloads), licensed [CC-BY 4.0](https://creativecommons.org/licenses/by/4.0/)
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## How to use this resource
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‎_sources/whats_new.md‎

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## GerBI community meeting 2026: Developing towards the ideal FAIR research data management environment
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## Building Research Infrastructure Communities That Last
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Soltwedel, Johannes Richard, Tom Boissonnet, Stefanie Weidtkamp-Peters
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Carole Goble
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Published 2026-03-17
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Published 2026-05-01
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The German BioImaging research software engineering (RSE) unit is active in a wide collection of projects. Here we sketch out how we envision these to function together towards a better research data management environment for our community of researchers, microscopists and bio-image analysts.
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Invited keynote for 
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19th OME Community Meeting, Düsseldorf, Germany, 28-30 April 2026, https://www.openmicroscopy.org/events/ome-community-meeting-2026.html
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[https://zenodo.org/records/19063027](https://zenodo.org/records/19063027)
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[https://zenodo.org/records/19949157](https://zenodo.org/records/19949157)
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[https://doi.org/10.5281/zenodo.19063027](https://doi.org/10.5281/zenodo.19063027)
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[https://doi.org/10.5281/zenodo.19949157](https://doi.org/10.5281/zenodo.19949157)
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## GloBIAS mission and working groups figure
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## From Microscope to Repository: Managing Image Data with OMERO
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Corbat, Agustin Andres, Walther, Christa G., de la Ballina, Laura R., Condon, Nicholas David, Felder, Alessandro A., Martin Schätz, Bettina Schmerl, Ko Sugawara, Clara Prats, Anna Klemm, Florian Levet, Kota Miura, Paula Sampaio, Christian Tischer, Rocco D'Antuono, Cimini, Beth A., Robert Haase
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Müller, Maximilian E.
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Published 2026-04-17
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Published 2026-05-05
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GloBIAS figure (available in .ai, .pdf and .png formats).
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This presentation was developed by NFDI4BIOIMAGE and held online as part of the CRC 1551 Data Week on 05. May 2026.
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It provides a general introduction to research data management (RDM) and public data deposition and highlights their specific relevance in research.
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Furthermore, it introduces OMERO as a platform for structured data storage, metadata management, and collaborative access and introduces repositories for imaging data.
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The slides are intended for educational use and may serve as a resource for teaching and training in research data management within the life sciences.
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We acknowledge funding by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under the National Research Data Infrastructure – NFDI 46/1 – 501864659.
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[https://zenodo.org/records/19631650](https://zenodo.org/records/19631650)
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[https://zenodo.org/records/20039402](https://zenodo.org/records/20039402)
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[https://doi.org/10.5281/zenodo.19631650](https://doi.org/10.5281/zenodo.19631650)
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[https://doi.org/10.5281/zenodo.20039402](https://doi.org/10.5281/zenodo.20039402)
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## How Generative Artificial Intelligence impacts Bio-Image Data Science
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## GloBIAS mission and working groups figure
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Robert Haase
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Corbat, Agustin Andres, Walther, Christa G., de la Ballina, Laura R., Condon, Nicholas David, Felder, Alessandro A., Martin Schätz, Bettina Schmerl, Ko Sugawara, Clara Prats, Anna Klemm, Florian Levet, Kota Miura, Paula Sampaio, Christian Tischer, Rocco D'Antuono, Cimini, Beth A., Robert Haase
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Published 2026-02-22
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Published 2026-04-17
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In  this slide deck we dive into generative artificial intelligence in particular used for code generation and see how it impacts Bio-Image Data Science. We learn about benchmarking large language models for data analysis code generation, and how to use them practically in our work.
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GloBIAS figure (available in .ai, .pdf and .png formats).
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[https://zenodo.org/records/18735653](https://zenodo.org/records/18735653)
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[https://zenodo.org/records/19631650](https://zenodo.org/records/19631650)
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[https://doi.org/10.5281/zenodo.18735653](https://doi.org/10.5281/zenodo.18735653)
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[https://doi.org/10.5281/zenodo.19631650](https://doi.org/10.5281/zenodo.19631650)
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