Standardization and best practices

[samikanza]

MADICES 2024 Recap
We delved into the realm of semantic annotation, emphasizing the adoption of RDF serialization formats for data representation, using JSON-LD as a working example, to enhance the interpretability and reusability of research datasets. Participants explored methodologies for incorporating metadata, handling missing values, and standardizing units for measurements. Tools and guidelines were developed to streamline the annotation process and ensure compatibility across different knowledge domains.

MADICES 2025 Focus Area
We want to focus on further refinement of protocols and guidelines for semantic annotation and interoperable data exchange. Recent discussions with members at the Future Labs Live 2024 event in Basel illuminated the interest in semantic interoperability of research data and the need for standards and tooling to facilitate ease-of-use and reduce the burden/barrier to semantically annotate datasets.

Please include links, comments, and discuss plans for this focus area below.

[hampusnasstrom]

There is a lot of focus on the semantic web with annotated data sets serialized as RDF, JSON-LD, or XML. However, I don't think we can expect every scientist to search through ontologies and connect them. This is rather a task for data stewards but the unfortunate reality is that most groups don't have access to one, and won't for the foreseeable future. I therefore believe that we need a way to Find, Interoperate, Access, and Reuse not only the definitions but the collection of the these in schemas/forms.

[PeterKraus]

One of the goals I have for MADICES-2025 is to understand how do I need to annotate my NetCDF datasets so that the annotations are useful downstream. By this I mean the mechanics of it, not figuring out the ontology labels etc.

I am happy to provide some example files, and prepare a spreadsheet matching data headers to ontology entries. These annotations could be implemented into either yadg or tomato.

[ml-evs]

My aim is similar to Peter's, how can I best annotate public or published entries (e.g. samples, devices, their relationships and attached measurements) in datalab instances so that it can be used downstream, even if semantic annotations are missing or incomplete.