New Schemapack version ready
by Sebastian Ferrara
Dear Colleagues,
I have updated our Schemapack file. Vera will check in the next few days whether this version aligns with our validation pipeline.
While creating the current version, I noticed the following:
For the following properties with controlled vocabularies, I need a list of vocabularies that we want to define for SP2025. These lists do not need to be anywhere near complete-two or three terms that match our use cases are sufficient. If it is too difficult to define even a few terms for certain properties, then the property should be scheduled for controlled vocabularies in WP2025 instead. I would need to reflect this in the metadata model-my suggestion: controlled vocabularies WP2025.
The properties for which I need a decision are as follows:
study_type_key
study_type_term
data_access_level
subject_type
species
sex
age_unit
human_comorbidities_key
ancestry_keys
ancestry_terms
tissue_term
collection_relative_time_point_unit
For this list, I also need the information on which properties allow null entries.
Once the metadata model for SP2025 is finalized, I will create the final Schemapack version for SP2025.
Best,
Sebastian
2 months, 2 weeks
INFO: Friendly reminder about tomorrow's TA1/TA2 call
by Stervbo,Ulrik
Dear TA1/2 Members,
This is a friendly reminder about our joint TA1/TA2 call scheduled for tomorrow *Wednesday* from 11:00 - 12:00 (11:58). You can join the call using the following zoom link: https://uni-ms.zoom-x.de/j/67022118320?pwd=cE6Q1Jd0R5c6D8ha608NBK06j13y0F.1 (Meeting-ID: 670 2211 8320; Password: nfdi4imu; host code: 584003).
You can find the call minutes on the NFDI4Immuno NextCloud under Task Area 1 > Call minutes (https://nextcloud.nfdi4immuno.de/f/1608). The agenda for tomorrow's call is stored at the same location.
If you're unable to attend, please let me know. Regular joint TA1/TA2 calls are every Thursday 11:00 - 12:00.
Best,
Ulrik
----
Dr. rer. nat. Ulrik Stervbo
Center for Translational Medicine, Immunology, and Transplantation
Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum
Hölkeskampring 40
44623 Herne
Germany
Immundiagnostik
Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum
Düngelstr 33
44623 Herne
Germany
Tel: +49 234 509 590 54
www.marienhospital-herne.de/TranslationaleMedizin<http://www.marienhospital-herne.de/TranslationaleMedizin>
www.babel-lab.de<http://www.babel-lab.de/>
_______________________________________________________________
Mitten in der St. Elisabeth Gruppe:
St. Anna Hospital Herne, Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum,
Marien Hospital Witten, Rheumazentrum Ruhrgebiet, St. Marien Hospital Eickel,
Medizinische Reha für psychische Gesundheit, St. Elisabeth Stift Herne, Senioreneinrichtungen Widumer Höfe,
Gästehaus St. Elisabeth, Ambulante Pflege, MVZ Ärzte - Herne | Wanne | Witten,
Lukas Hospiz Herne, St. Elisabeth Hospiz Witten, Bildungszentrum Ruhr, Bildungswerk,
Campus der St. Elisabeth Gruppe, Kinder in der St. Elisabeth Gruppe
_______________________________________________________________
Aufsichtsratsvorsitzender: Dr. Hans Willmes
Geschäftsführung: Dr. Sabine Edlinger, Simone Lauer
Registergericht:
HRB 9735 Amtsgericht Bochum
St.-Nr.: 325/5894/2251
_______________________________________________________________
Wir bitten wegen der aktuellen Virenangriffe um folgende Beachtung:
Das Sicherheitskonzept der St. Elisabeth Gruppe erlaubt momentan keine Zustellung von .doc
(x) und .xls(x) Dateien! Schicken Sie Dokumente nur in Form von .pdf Dateien oder nehmen Sie
Kontakt auf, um andere Übertragungsmöglichkeiten abzusprechen.
2 months, 2 weeks
INFO: TA1/2 Regular call - Summary of today's call
by Stervbo,Ulrik
Dear colleagues,
Here is the summary of todays regular TA1/2 call. Thank you all for the great interactions!
Housekeeping: Böhm will organize and lead next week's meeting.
Search Portal Functionality:
- Ulrik introduced upcoming work on the search portal. A new document will be created to describe its functionality. Everyone is asked to think about:
- What properties users should be able to search for.
- What information is needed to evaluate search results.
- Additional useful search features.
- *>> Action item*: Submit ideas for functionality by Monday evening https://nextcloud.nfdi4immuno.de/f/25339
NFDI4Immuno Website Presentation:
- Charlyn gave a presentation on the current state of the project website.
- There was a discussion about how to best integrate general information and data portal parts.
- General agreement that the space for general information on the NFDI4Immuno Consortium and for the Data Portal can run on completely different backends, but must have same look and feel.
GitLab Project Structure Update:
- Ulrik shared outcomes from a related call:
- GitLab will be used to register and manage Products, Components, Deliverables, Milestones, and tasks.
- Component responsibilities will be assigned.
- The goal is to improve coordination across TAs.
- Four main products identified:
1. Portal Infrastructure
2. Training & Outreach
3. Data
4. Tools
Winter Product 2025 Timeline:
- Discussion focused on infrastructure needs. A server is required to support the development of the submission pipeline by the coding groups in TA1/TA2. Coordination with TA4 is pending.
- Clarifying questions were raised. No objections to the timeline was voiced.
Backlog (Not Discussed Today)
- Better coordination between groups (Ulrik, Katherina).
- Participation in NFDI Sections, task forces, and working groups (Ulrik).
Action items
- *All*: Submit search portal functionality ideas by Monday evening via https://nextcloud.nfdi4immuno.de/f/25339.
Please review the action items and let me know if there are any questions or additional points to discuss at the next call.
Best,
Ulrik
----
Dr. rer. nat. Ulrik Stervbo
Center for Translational Medicine, Immunology, and Transplantation
Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum
Hölkeskampring 40
44623 Herne
Germany
Immundiagnostik
Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum
Düngelstr 33
44623 Herne
Germany
Tel: +49 234 509 590 54
www.marienhospital-herne.de/TranslationaleMedizin<http://www.marienhospital-herne.de/TranslationaleMedizin>
www.babel-lab.de<http://www.babel-lab.de/>
_______________________________________________________________
Mitten in der St. Elisabeth Gruppe:
St. Anna Hospital Herne, Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum,
Marien Hospital Witten, Rheumazentrum Ruhrgebiet, St. Marien Hospital Eickel,
Medizinische Reha für psychische Gesundheit, St. Elisabeth Stift Herne, Senioreneinrichtungen Widumer Höfe,
Gästehaus St. Elisabeth, Ambulante Pflege, MVZ Ärzte - Herne | Wanne | Witten,
Lukas Hospiz Herne, St. Elisabeth Hospiz Witten, Bildungszentrum Ruhr, Bildungswerk,
Campus der St. Elisabeth Gruppe, Kinder in der St. Elisabeth Gruppe
_______________________________________________________________
Aufsichtsratsvorsitzender: Dr. Hans Willmes
Geschäftsführung: Dr. Sabine Edlinger, Simone Lauer
Registergericht:
HRB 9735 Amtsgericht Bochum
St.-Nr.: 325/5894/2251
_______________________________________________________________
Wir bitten wegen der aktuellen Virenangriffe um folgende Beachtung:
Das Sicherheitskonzept der St. Elisabeth Gruppe erlaubt momentan keine Zustellung von .doc
(x) und .xls(x) Dateien! Schicken Sie Dokumente nur in Form von .pdf Dateien oder nehmen Sie
Kontakt auf, um andere Übertragungsmöglichkeiten abzusprechen.
2 months, 3 weeks
Timeline for the Winter Product 25
by Stervbo,Ulrik
Dear all,
The May 25 deadline for defining our work for the Winter Product 2025 is rapidly approaching. To prepare and enable discussion at our regular call on Thursday I have create the updated timeline as a file on NextCloud (TA1/WP25 timeline.odt; https://nextcloud.nfdi4immuno.de/f/25095).
Our aim for Thursday is to approve the timeline - with defined modification if necessary, so we can pass it on for mapping of inter TA dependencies by May 25.
Best,
Ulrik
----
Dr. rer. nat. Ulrik Stervbo
Center for Translational Medicine, Immunology, and Transplantation
Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum
Hölkeskampring 40
44623 Herne
Germany
Immundiagnostik
Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum
Düngelstr 33
44623 Herne
Germany
Tel: +49 234 509 590 54
www.marienhospital-herne.de/TranslationaleMedizin<http://www.marienhospital-herne.de/TranslationaleMedizin>
www.babel-lab.de<http://www.babel-lab.de/>
_______________________________________________________________
Mitten in der St. Elisabeth Gruppe:
St. Anna Hospital Herne, Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum,
Marien Hospital Witten, Rheumazentrum Ruhrgebiet, St. Marien Hospital Eickel,
Medizinische Reha für psychische Gesundheit, St. Elisabeth Stift Herne, Senioreneinrichtungen Widumer Höfe,
Gästehaus St. Elisabeth, Ambulante Pflege, MVZ Ärzte - Herne | Wanne | Witten,
Lukas Hospiz Herne, St. Elisabeth Hospiz Witten, Bildungszentrum Ruhr, Bildungswerk,
Campus der St. Elisabeth Gruppe, Kinder in der St. Elisabeth Gruppe
_______________________________________________________________
Aufsichtsratsvorsitzender: Dr. Hans Willmes
Geschäftsführung: Dr. Sabine Edlinger, Simone Lauer
Registergericht:
HRB 9735 Amtsgericht Bochum
St.-Nr.: 325/5894/2251
_______________________________________________________________
Wir bitten wegen der aktuellen Virenangriffe um folgende Beachtung:
Das Sicherheitskonzept der St. Elisabeth Gruppe erlaubt momentan keine Zustellung von .doc
(x) und .xls(x) Dateien! Schicken Sie Dokumente nur in Form von .pdf Dateien oder nehmen Sie
Kontakt auf, um andere Übertragungsmöglichkeiten abzusprechen.
2 months, 3 weeks
Data Portal UI
by Stervbo,Ulrik
Dear all,
I took the liberty and placed the data portal UI mock-ups in the folder '4_Data portal UI development'.
Best,
Ulrik
----
Dr. rer. nat. Ulrik Stervbo
Center for Translational Medicine, Immunology, and Transplantation
Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum
Hölkeskampring 40
44623 Herne
Germany
Immundiagnostik
Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum
Düngelstr 33
44623 Herne
Germany
Tel: +49 234 509 590 54
www.marienhospital-herne.de/TranslationaleMedizin<http://www.marienhospital-herne.de/TranslationaleMedizin>
www.babel-lab.de<http://www.babel-lab.de/>
_______________________________________________________________
Mitten in der St. Elisabeth Gruppe:
St. Anna Hospital Herne, Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum,
Marien Hospital Witten, Rheumazentrum Ruhrgebiet, St. Marien Hospital Eickel,
Medizinische Reha für psychische Gesundheit, St. Elisabeth Stift Herne, Senioreneinrichtungen Widumer Höfe,
Gästehaus St. Elisabeth, Ambulante Pflege, MVZ Ärzte - Herne | Wanne | Witten,
Lukas Hospiz Herne, St. Elisabeth Hospiz Witten, Bildungszentrum Ruhr, Bildungswerk,
Campus der St. Elisabeth Gruppe, Kinder in der St. Elisabeth Gruppe
_______________________________________________________________
Aufsichtsratsvorsitzender: Dr. Hans Willmes
Geschäftsführung: Dr. Sabine Edlinger, Simone Lauer
Registergericht:
HRB 9735 Amtsgericht Bochum
St.-Nr.: 325/5894/2251
_______________________________________________________________
Wir bitten wegen der aktuellen Virenangriffe um folgende Beachtung:
Das Sicherheitskonzept der St. Elisabeth Gruppe erlaubt momentan keine Zustellung von .doc
(x) und .xls(x) Dateien! Schicken Sie Dokumente nur in Form von .pdf Dateien oder nehmen Sie
Kontakt auf, um andere Übertragungsmöglichkeiten abzusprechen.
2 months, 4 weeks
INFO: TA1/2 Regular call - Summary of today's call
by Stervbo,Ulrik
Dear all,
Below is a summary of today's call.
- Conference: GRC-IB 2025
- Discussed the upcoming GRC-IB 2025 Bioinformatics Conferences, scheduled for September 10-12.
- Action Item: Everyone is requested to check the conference program. Our aim is to send 1 or 2 participants from TA1/2.
- UI Mockup:
- Lina presented initial mockup of the data portal UI.
- Question by Daniel: Should we have a data set management page?
- @Daniel: I didn't get all your ideas, can you send them to Lina?
- Lina is the sole Data Portal UI mock-up group member and will report every 2 weeks.
- We discussed different mock-up tools, if needed we'll see if we can get a license.
- GitLab Project Structure Setup Meeting on Friday:
- Ulrik, Böhm, Katherina will participate
- Update Feedback Timeline WP25:
- Ulrik gave an update on the comments to the time line presented last week.
- Ulrik presented his idea for using the milestone deadlines as options to take stock of the progress on ambitious timeline to reach the desired WP25.
Action Items
- *Everyone*: Check the GRC-IB conference program and consider participation.
- *Everyone*: Think about strategies to improve coordination between groups.
- *Daniel*: Send ideas to Lina (lina.alasfar(a)dhzc-charite.de).
I have added a Group 4 with the suggested aims to the Overview.docx:
- Outline user interaction in different situations (like search, data access, data access management).
- Create mock-up of the data portal UI for different situations.
Please review the action items and let me know if there are any questions or additional points to discuss at the next call.
Best,
Ulrik
----
Dr. rer. nat. Ulrik Stervbo
Center for Translational Medicine, Immunology, and Transplantation
Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum
Hölkeskampring 40
44623 Herne
Germany
Immundiagnostik
Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum
Düngelstr 33
44623 Herne
Germany
Tel: +49 234 509 590 54
www.marienhospital-herne.de/TranslationaleMedizin<http://www.marienhospital-herne.de/TranslationaleMedizin>
www.babel-lab.de<http://www.babel-lab.de/>
_______________________________________________________________
Mitten in der St. Elisabeth Gruppe:
St. Anna Hospital Herne, Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum,
Marien Hospital Witten, Rheumazentrum Ruhrgebiet, St. Marien Hospital Eickel,
Medizinische Reha für psychische Gesundheit, St. Elisabeth Stift Herne, Senioreneinrichtungen Widumer Höfe,
Gästehaus St. Elisabeth, Ambulante Pflege, MVZ Ärzte - Herne | Wanne | Witten,
Lukas Hospiz Herne, St. Elisabeth Hospiz Witten, Bildungszentrum Ruhr, Bildungswerk,
Campus der St. Elisabeth Gruppe, Kinder in der St. Elisabeth Gruppe
_______________________________________________________________
Aufsichtsratsvorsitzender: Dr. Hans Willmes
Geschäftsführung: Dr. Sabine Edlinger, Simone Lauer
Registergericht:
HRB 9735 Amtsgericht Bochum
St.-Nr.: 325/5894/2251
_______________________________________________________________
Wir bitten wegen der aktuellen Virenangriffe um folgende Beachtung:
Das Sicherheitskonzept der St. Elisabeth Gruppe erlaubt momentan keine Zustellung von .doc
(x) und .xls(x) Dateien! Schicken Sie Dokumente nur in Form von .pdf Dateien oder nehmen Sie
Kontakt auf, um andere Übertragungsmöglichkeiten abzusprechen.
3 months
WG: NFDI ELSA Working Group Ethics
by Stervbo,Ulrik
-----Ursprünglicher Termin-----
Von: Bruns, Andreas <Andreas.Bruns(a)med.uni-heidelberg.de<mailto:Andreas.Bruns@med.uni-heidelberg.de>>
Gesendet: Donnerstag, 15. Mai 2025 16:08
An: Bruns, Andreas; NFDI ELSA Section; Working Group Ethics (NFDI)
Betreff: [Section-ELSA] NFDI ELSA Working Group Ethics
Zeit: Mittwoch, 18. Juni 2025 13:00-14:30 (UTC+01:00) Amsterdam, Berlin, Bern, Rom, Stockholm, Wien.
Ort: https://uni-koeln.zoom.us/j/94139503223?pwd=Y2dLQW5HT1hYZGkrbzhpdEJjMlFSZz09
Dear ELSA members,
[Apologies for cross-posting.]
I would like to invite you to the next meeting of our Working Group Ethics on 18 June from 13:00-14:30.
In the meantime, if you have any questions or topics concerning the Working Group that you'd like to bring forward, feel free to get in touch.
Kind regards,
Anderas Bruns (GHGA)
-----
Join Zoom Meeting
https://uni-koeln.zoom.us/j/94139503223?pwd=Y2dLQW5HT1hYZGkrbzhpdEJjMlFSZz09
Meeting ID: 996 6278 3535
Password: 389845
3 months
NFDI4Immuno - TA1/TA2
by Stervbo,Ulrik
Zoom: https://uni-ms.zoom-x.de/j/67022118320?pwd=cE6Q1Jd0R5c6D8ha608NBK06j13y0F.1
Meeting-ID: 670 2211 8320
Password: nfdi4imu
host code: 584003
You can find the minutes from our previous calls on the NFDI4Immuno NextCloud under Task Area 1 > Call minutes.
Regular calls are every Thursday 11:00 - 12:00.
_______________________________________________________________
Mitten in der St. Elisabeth Gruppe:
St. Anna Hospital Herne, Marien Hospital Herne - Universitätsklinikum der Ruhr-Universität Bochum,
Marien Hospital Witten, Rheumazentrum Ruhrgebiet, St. Marien Hospital Eickel,
Medizinische Reha für psychische Gesundheit, St. Elisabeth Stift Herne, Senioreneinrichtungen Widumer Höfe,
Gästehaus St. Elisabeth, Ambulante Pflege, MVZ Ärzte - Herne | Wanne | Witten,
Lukas Hospiz Herne, St. Elisabeth Hospiz Witten, Bildungszentrum Ruhr, Bildungswerk,
Campus der St. Elisabeth Gruppe, Kinder in der St. Elisabeth Gruppe
_______________________________________________________________
Aufsichtsratsvorsitzender: Dr. Hans Willmes
Geschäftsführung: Dr. Sabine Edlinger, Simone Lauer
Registergericht:
HRB 9735 Amtsgericht Bochum
St.-Nr.: 325/5894/2251
_______________________________________________________________
Wir bitten wegen der aktuellen Virenangriffe um folgende Beachtung:
Das Sicherheitskonzept der St. Elisabeth Gruppe erlaubt momentan keine Zustellung von .doc
(x) und .xls(x) Dateien! Schicken Sie Dokumente nur in Form von .pdf Dateien oder nehmen Sie
Kontakt auf, um andere Übertragungsmöglichkeiten abzusprechen.
3 months
FAO Metadata Seminar
by Böhm, Sebastian
Dear all,
there will be an interesting Seminar coming up in two weeks time,
handling Metadata Standards and Metadata harvesting.
It is not concerning us 100% directly, but I hope that there will be delivered
standards for handling Metadata standards and to see how Metadata harvesting is working.
Further information are below.
Best wishes and see you soon,
Sebastian
Dr. Sebastian Böhm
Institut für Immunologie
___________________________________________
Friedrich-Loeffler-Institut
Bundesforschungsinstitut für Tiergesundheit
Federal Research Institute for Animal Health
Südufer 10 | 17493 Greifswald - Insel Riems
Tel: +49 38351 7 1889
https://www.fli.de/
¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯¯
Instagram<https://www.instagram.com/loeffler_news>
LinkedIn<https://www.linkedin.com/company/friedrich-loeffler-institut>
Von: AGRIS Network News <faoagris(a)dgroups.org<mailto:faoagris@dgroups.org>> Im Auftrag von agris(a)fao.org<mailto:agris@fao.org>
Gesendet: Dienstag, 13. Mai 2025 12:06
An: AGRIS Network News <faoagris(a)dgroups.org<mailto:faoagris@dgroups.org>>
Betreff: [External] [agris] Unlock the Power of Metadata: Join the FAO AGRIS Webinar on 27 May
ACHTUNG: EXTERNE E-MAIL
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AGRIS News
May 2025
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©FAO
Join the FAO AGRIS Webinar: Enhancing Metadata Standards & OAI-PMH Compliance for current and prospective AGRIS Data Providers on 27 May 2025
The Food and Agriculture Organization of the United Nations (FAO)<https://newsletters.fao.org/c/11S7OJuIe7TxNFe7cRgRMmuhC> is pleased to invite current and prospective data providers to an AGRIS<https://newsletters.fao.org/c/11S7OJGezqYS2wqdmDmZfsJdz> webinar focused on improving the quality, interoperability, and accessibility of agricultural knowledge through metadata standards and OAI-PMH compliance on 27 May at 14:00 CEST.
As a global information system for agriculture and allied sciences - The International System for Agricultural Science and Technology, AGRIS depends on structured and standardized metadata to provide open access to a wealth of bibliographic records from across the world.
This webinar will help participants:
· Understand AGRIS metadata requirements and how they support discoverability;
· Learn about the OAI-PMH protocol and how it facilitates metadata harvesting from institutional repositories;
· Receive practical guidance on preparing repositories for AGRIS integration, including metadata formatting and endpoint validation;
· Discover tools and resources provided by FAO to support new data providers.
This webinar is ideal for:
· Institutions planning to contribute data to the AGRIS database;
· Librarians and information specialists managing institutional repositories;
· Developers and system administrators involved in metadata harvesting;
· Researchers and data managers focused on agricultural data sharing.
By aligning with AGRIS metadata standards and ensuring OAI-PMH compliance, institutions can increase visibility and global access to their agricultural research outputs, join a network of over 1400 data providers from 160+ countries, and contribute to a global public good that supports sustainable agriculture and food security.
Interested participants can register for the webinar here: https://fao.zoom.us/meeting/register/KtOh77RWT66_CKKreUNVMQ<https://newsletters.fao.org/c/11S7OJRKUK4chnCjwpt6IyY9w>
To stay up to date on future AGRIS events and training opportunities, join the community here: https://dgroups.org/fao/agris<https://newsletters.fao.org/c/11S7OK3hg39wweOpGbzebFd5t>.
More about AGRIS
AGRIS is one of the most comprehensive food and agricultural scientific literature databases worldwide. Accessible through a user-friendly search interface, millions of bibliographic records in more than 100 languages are available for free to global users. AGRIS is also an international network of data providers, including publishers, governments, and research organisations, that volunteer information (metadata) about food and agricultural science publications. These records are provided in multilingual formats and frequently include full-text links to connect users to scientific literature worldwide. Learn more at fao.org/agris<https://newsletters.fao.org/c/11S7OKqjWFkaZXcBZJLt7RGXn>.
REGISTER<https://newsletters.fao.org/c/11S7OKBQhYpveOoI9vRAAXVTk>
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