NFDI4Immuno - All-Hands Meeting 2025

Session

Breakout

23 Apr 2025, 09:15

frizzforum

Conveners

Breakout: Tools & Workflows

• Mariama Jaiteh (Helmholtz-Centre for Infection Research (HZI))

Breakout: Infrastructure layer

• Christian Busse (German Cancer Research Center (DKFZ))

Breakout: Internal organization

• Sebastian Ferrara (Deutsches Rheuma-Forschungszentrum Berlin (DRFZ))

Breakout: Terminologies & Ontologies

• Ulrik Stervbo (Ruhr-Universität Bochum)

Breakout: Metadata interoperability

• Sebastian Boehm (Friedrich-Loeffler Institut)

Breakout: Data

• Anca Dorhoi

Breakout: Summaries

• There are no conveners in this block

25. Connecting data analysis tools to the Data portal

23/04/2025, 09:15

Breakout session

During this session, we would like to present our current tools and discuss their integration into the future website and portal. We will present a use case of Hyphasma and showcase how nf-core/airrflow operates. nf-core/airrflow is a bioinformatics pipeline dedicated to the analysis or B or T-cell repertoire sequencing data. Hyphasma is a computational tool which allows the simulation of...

23. How is our hardware architecture structured?

23/04/2025, 09:15

Breakout session

On which servers are the different data types stored, and who is responsible for this? On which server should the search portal operate?

31. How to coordinate TAs' work around the data flow

23/04/2025, 11:15

Breakout session

(This has been split-off from contribution #24)
As the interfaces cannot be completely specified in the short time available, contact is established between a responsible person from the respective TA so that these two people can coordinate the jointly used interface at short notice at any time.

27. TS4NFDI: Harmonizing Terminology Services within NFDI

23/04/2025, 11:15

Breakout session

Goal of TS4NFDI

An overarching research data management across all domains is built upon metadata describing research data and their generation. To make sure that disciplines can create and share a common understanding of the concepts and relations used to describe data, we need terminologies as a formal representation of domain knowledge. Terminology Services 4 NFDI (TS4NFDI) provides...

22. Intensification of collaboration between the individual TAs?

23/04/2025, 11:30

Breakout session

Are there any needs for stronger collaboration between the individual TAs?
For example, does TA3 require information from TA1/TA2 to develop training sessions or update our website? Or should TA1/TA2 work more closely with TA4 to ensure that the transpiled and validated metadata is better integrated into the database?

17. Life Science Ontologies

23/04/2025, 12:00

Breakout session

The number of available ontologies is daunting, and some are clearly more complete than others and some are better than others (what ever 'better' means).

A break out session on ontologies could address one or more of the questions:

• What is the overlap in needed ontologies between our close-friends consortia?
• How does interoperability between ontologies work?
• How can 'good' and...

18. Metadata interoperability within NFDI

23/04/2025, 14:00

Breakout session

Synthesis (see below for original proposals): Interoperability of metadata across consortia is one of the key tasks of NFDI. Therefore the work of TA1/TA2 needs to be in line with various other NFDI activites:

• BioMed Interoperability group
• Section Metadata, its working groups and Task Force Metadata
• Base services relating to metadata (e.g. TS4NFDI)

In this session we will...

19. Test dataset

23/04/2025, 14:00

Breakout session

We may benefit from having minimal yet complete datasets for different use cases. The aim of the breakout session would be to open a discussion on a centralized set of test data, that are not based on the developed schemas, but stem from actual laboratory work and will be used to capture any obvious shortcomings as we develop NFDI4Immuno.

The breakout session could address the...

7. Breakout - Tools & Workflows

Mariama Jaiteh (Helmholtz-Centre for Infection Research (HZI))

24/04/2025, 09:15

Report

12. Breakout - Infrastructure layer

Christian Busse (German Cancer Research Center (DKFZ))

24/04/2025, 09:25

Report

10. Breakout - Terminologies & Ontologies

Ulrik Stervbo (Ruhr-Universität Bochum)

24/04/2025, 09:35

Report

9. Breakout - Internal organization

Sebastian Ferrara (Deutsches Rheuma-Forschungszentrum Berlin (DRFZ))

24/04/2025, 09:45

Report

11. Breakout - Metadata interoperability

Katherina Siewert (German Federal Institute for Risk Assessment)

24/04/2025, 09:55

8. Breakout - Data

Anca Dorhoi

24/04/2025, 10:05

Report

30. Plenary - Tool survey

Charlyn Dornte (Universitätsklinikum Essen - Institut für Zellbiologie (Tumorforschung)), Mariama Jaiteh (Helmholtz-Centre for Infection Research (HZI))

24/04/2025, 10:15

Report

28. Workshop - Workflow integration

Christian Busse (German Cancer Research Center (DKFZ))

24/04/2025, 10:25

Report