Events organized by I3D:bio
Upcoming events are shown with open toggles, past meetings are closed.
(->M) indicates where material from the event is available for download or review.
After the successful on-site deployment of an OMERO server at the Trends in Microscopy conference 2023, the I3D:bio team will be back in Münsingen for the TiM 2025 from March 17-21. For this event, a collaboration with data stewards from NFDI4BIOIMAGE and members of the Euro-BioImaging Image Data Services team will allow us to again collect the data including REMBI-annotated metadata from the microscopy workshops, but also offer own workshops on selected bioimage RDM topics.
Find more information here: https://gerbi-gmb.de/event/tim2025/
The I3D:bio team announces an on-premise workshop about how to implement a new OMERO instance at a research institution from scratch.
This workshop is directed at teams from imaging facilities and IT departments together.
Two-Day-Workshop: October 16th and 17th.
On-Premise in Heidelberg or Düsseldorf (to be decided)
The workshop material is available on Zenodo:
https://doi.org/10.5281/zenodo.14013025
I3D:bio and NFDI4BIOIMAGE organize an online workshop about effective use of structured metadata annotations in OMERO to enhance the usability of imaging data for image analysis and publication.
Two-Day-Workshop: April 29th & 30th.
Online in Zoom.
Workshop material published on Zenodo: https://zenodo.org/doi/10.5281/zenodo.11109615
The I3D:bio team co-organizes the RDM4Mic Meeting, taking place in Münster from September 19th to 21st.
Please see details and registration on the RDM4mic website here:
https://german-bioimaging.github.io/RDM4mic.github.io/
At 2023’s European Light Microscopy Conference, the I3D:bio team offered a workshop in collaboration with Caterina Strambio De-Castillia from BioImaging North America. The workshop focused on Hands-On Metadata Annotation using REMBI annotation guidelines.
At the Trends in Microscopy Conference, the I3D:bio team will provide an OMERO-based framework for managing the bioimaging data generated in the workshops. Find more details on the conference and the data management concept here.
We are especially thankful to our keynote speaker of the event, Jason Swedlow (University of Dundee).
Download here the meeting report, which includes video links to recorded meeting sessions.
Co-organized by I3D:bio, the RDM4mic meeting in May 2022 focused on training and educational material for bioimaging RDM.
Participation of I3D:bio members in external events
Representing the I3D:bio project, Dr. Lena Krämer, project coordinator at the DKFZ (until end of Dec. 2024) gave an invited talk at the guest seminar series of the Research Training Group 2737 – STRESSistance (Molecular mechanisms to preserve the functionality of membranes and compartments during stress conditions) at the RPTU Kaiserslautern.
Lena presented about the significance of research data management and the specific challenges of bioimaging data, providing an overview of OMERO as an image data management solution and the project goals and deliverables of the I3D:bio project.
The talk slides are available on Zenodo:
https://doi.org/10.5281/zenodo.14260162
The Gesellschaft für Biochemie und Molekularbiologie (GBM) will host the GBM Compact Symposium in Frankfurt on Sept. 26th and 27th.
Jointly organized by NFDI4BIOIMAGE and the I3D:bio project, we will present a workshop about research data management for bioimaging data.
- Introduction to BioImaging Research Data Management, NFDI4BIOIMAGE and I3D:bio (Christian Schmidt, DKFZ Heidelberg)
- OMERO as a tool for bioimaging data management (Tom Boissonnet, Heinrich-Heine Universität Düsseldorf)
- Reproducible image analysis workflows with OMERO software APIs (Michele Bortolomeazzi, DKFZ Heidelberg)
- Publishing datasets in public archives for bioimage data (Ksenia Krooß, Heinrich-Heine Universität Düsseldorf)
Find more information here: https://gbm-compact.org/gbm-compact-2.html
The workshop material is available on Zenodo:
https://doi.org/10.5281/zenodo.13861025
Tom Boissonnet from the Heinrich Heine University Düsseldorf gave a workshop at the Johannes Gutenberg University of Mainz about the use of OMERO for bioimaging data management.
The workshop included an introductory lecture and hands-on training for the researchers at the JGU Mainz and at Institute for Molecular Biology (IMB).
The workshop was hosted by Dr. B. Hülsmann und Dr. S. Ritz.
In collaboration with Caterina Strambio De Casillia from the UMass Medical School in Boston, MA, US, I3D:bio team memeber Tom Boissonnet presented a talk about bioimage data management at the FocalPlane feature series.
Abstract:
With the amount and size of imaging data constantly increasing, data management is becoming an ever more important topic, but one that is often neglected by microscopists. In this webinar, Tom Boissonnet and Caterina Strambio De Castillia, who are both experts in data management but with backgrounds in biological research, discuss how to approach data management and share their tips and tricks to ensuring you have a robust pipeline in place.
(https://focalplane.biologists.com/2024/08/22/focalplane-features-data-management/)
The recording of the talk can be found on YouTube:
https://www.youtube.com/watch?v=g0OgzAYWjpQ
The I3D:bio team visited the German BioImaging – GerBI-GMB Community Meeting 2024 to discuss our progress in advancing research data management practices and support in the community.
The joint presentation is available on Zenodo:
Weidtkamp-Peters, S., Moore, J., Schmidt, C., Nitschke, R., Kunis, S., & Zobel, T. (2024, März 28). [Community Meeting 2024] Supporting and financing RDM projects within GerBI. GerBI Community Meeting 2024 (GerBI_CM24), Monastery Frauenberg Fulda. Zenodo. https://doi.org/10.5281/zenodo.10889694
At the Halfway to I2K Conference 2023 with a focus on Image Analysis Training, the I3D:bio team member Tom Boissonnet presented an online Training about reproducible figure creation with OMERO.
Watch the recording on YouTube here:
https://www.youtube.com/watch?v=Mty7_382kMM
Tom Boissonnet, Susanne Kunis, Christian Schmidt, and our Use Case partner Michele Bortolomeazzi will participate in the Physics of Life Excellence Cluster BioImage Analysis Symposium in Dresden, taking place from August 29th to September 1st.
More information: https://biapol.eventmember.de/
The E-Science Tage 2023 take place from March 1st to 3rd in Heidelberg.
The I3D:bio team will be represented by Christian Schmidt, providing a poster presentation on the I3D:bio project.
February 6th, at 4 pm (online, Zoom)
“A journey to FAIR microscopy data”
Talk By S. Weidtkamp-Peters, J. Hanne & C. Schmidt
32nd MoMAN Seminar, Ulm
More info.
The symposium on bioimage analysis will be taking place at the Francis Crick Institute in London. Tom Boissonnet from the I3D:bio team will participate in this year’s conference.
The Max Planck Bioimaging Core Unit Network has invited to its General Assembly on Oct. 6th. The main topic of this year’s meeting is research data management. Christian Schmidt from the I3D:bio (and NFDI4BIOIMAGE) team contributed to the meeting by presenting an overview on the RDM activities for bioimaging in Germany.
The talk slides are available for download here.
The BioImaging UK community will have its meeting on Friday, Sept. 16th. Stefanie Weidtkamp-Peters (I3D:bio PI, chairperson of GerBI-GMB, and speaker of NFDI4BIOIMAGE) will attend the meeting and speak about RDM in bioimaging.
