-
Studies in Health Technology and... Sep 2023To provide clinical data in distributed research architectures, a fundamental challenge involves defining and distributing suitable metadata within Metadata...
To provide clinical data in distributed research architectures, a fundamental challenge involves defining and distributing suitable metadata within Metadata Repositories. Especially for structured data, data elements need to be bound against suitable terminologies; otherwise, other systems will only be able to interpret the data with complex and error-prone manual involvement. As current Metadata Repository implementations lack support for querying externally defined terminologies in FHIR terminology servers, we propose an intermediate solution that uses appropriate annotations on metadata elements to allow run-time Terminology Services mediated queries of that metadata. This allows a very clear separation of concerns between the two related systems, greatly simplifying terminological maintenance. The system performed well in a prototypical deployment.
Topics: Metadata
PubMed: 37697859
DOI: 10.3233/SHTI230721 -
Studies in Health Technology and... Sep 2023Metadata is essential for handling medical data according to FAIR principles. Standards are well-established for many types of electrophysiological methods but are still...
Metadata is essential for handling medical data according to FAIR principles. Standards are well-established for many types of electrophysiological methods but are still lacking for microneurographic recordings of peripheral sensory nerve fibers in humans. Developing a new concept to enhance laboratory workflows is a complex process. We propose a standard for structuring and storing microneurography metadata based on odML and odML-tables. Further, we present an extension to the odML-tables GUI that enables user-friendly search functionality of the database. With our open-source repository, we encourage other microneurography labs to incorporate odML-based metadata into their experimental routines.
Topics: Humans; Metadata; Databases, Factual; Interior Design and Furnishings; Laboratories; Workflow
PubMed: 37697832
DOI: 10.3233/SHTI230687 -
Studies in Health Technology and... Jan 2024Metadata are often the first access to data repositories for researchers within secondary use. Through automatic metadata generation and metadata harvesting the amount... (Review)
Review
Metadata are often the first access to data repositories for researchers within secondary use. Through automatic metadata generation and metadata harvesting the amount of data about data has been growing ever since. In order to make data not only FAIR but also reliable, the aspect of metadata quality has to be considered. But as earlier assessments of metadata of different repositories showed, metadata quality still lacks behind its capability. Providing an extensive literature review the authors conclude nine measures to assess metadata in relation to clinical care repositories, such as Medical Data Integration Centers (MeDICs). Proceeding from these measures the authors propose an addition of the FAIR Guiding Principles by adding a fifth block for Reliability including three principles, that resulted from the measures presented. The results form the basis for the future work of an assessment of metadata, that is stored in a MeDIC.
Topics: Humans; Hospitals; Metadata; Reproducibility of Results; Research Personnel
PubMed: 38269773
DOI: 10.3233/SHTI230935 -
Nature Sep 2022
Topics: Information Dissemination; Metadata
PubMed: 36064801
DOI: 10.1038/d41586-022-02820-7 -
Studies in Health Technology and... May 2023Metadata standards are well-established for many types of electrophysiological methods but are still lacking for microneurographic recordings of peripheral sensory nerve...
Metadata standards are well-established for many types of electrophysiological methods but are still lacking for microneurographic recordings of peripheral sensory nerve fibers in humans. Finding a solution for daily work in the laboratory is a complex process. We have designed templates based on odML and odML-tables to structure and capture metadata and provided an extension to the existing GUI to enable database searching.
Topics: Humans; Metadata; Palliative Care
PubMed: 37203689
DOI: 10.3233/SHTI230144 -
PloS One 2022To adopt the FAIR principles (Findable, Accessible, Interoperable, Reusable) to enhance data sharing, the Cure Sickle Cell Initiative (CureSCi) MetaData Catalog (MDC)...
OBJECTIVES
To adopt the FAIR principles (Findable, Accessible, Interoperable, Reusable) to enhance data sharing, the Cure Sickle Cell Initiative (CureSCi) MetaData Catalog (MDC) was developed to make Sickle Cell Disease (SCD) study datasets more Findable by curating study metadata and making them available through an open-access web portal.
METHODS
Study metadata, including study protocol, data collection forms, and data dictionaries, describe information about study patient-level data. We curated key metadata of 16 SCD studies in a three-tiered conceptual framework of category, subcategory, and data element using ontologies and controlled vocabularies to organize the study variables. We developed the CureSCi MDC by indexing study metadata to enable effective browse and search capabilities at three levels: study, Patient-Reported Outcome (PRO) Measures, and data element levels.
RESULTS
The CureSCi MDC offers several browse and search tools to discover studies by study level, PRO Measures, and data elements. The "Browse Studies," "Browse Studies by PRO Measures," and "Browse Studies by Data Elements" tools allow users to identify studies through pre-defined conceptual categories. "Search by Keyword" and "Search Data Element by Concept Category" can be used separately or in combination to provide more granularity to refine the search results. This resource helps investigators find information about specific data elements across studies using public browsing/search tools, before going through data request procedures to access controlled datasets. The MDC makes SCD studies more Findable through browsing/searching study information, PRO Measures, and data elements, aiding in the reuse of existing SCD data.
Topics: Humans; Metadata; Information Dissemination; Anemia, Sickle Cell
PubMed: 36508412
DOI: 10.1371/journal.pone.0256248 -
Social Studies of Science Oct 2019'Metadata' has received a fraction of the attention that 'data' has received in sociological studies of scientific research. A neglect of 'metadata' reduces the...
'Metadata' has received a fraction of the attention that 'data' has received in sociological studies of scientific research. A neglect of 'metadata' reduces the attention on a number of critical aspects of scientific work processes, including documentary work, accountability relations, and collaboration routines. Metadata processes and products are essential components of the work needed to practically accomplish day-to-day scientific research tasks, and are central to ensuring that research findings and products meet externally driven standards or requirements. This article is an attempt to open up the discussion on and conceptualization of metadata within the sociology of science and the sociology of data. It presents ethnographic research of metadata creation within everyday scientific practice, focusing on how researchers document, describe, annotate, organize and manage their data, both for their own use and the use of researchers outside of their project. In particular, this article argues that the role and significance of metadata within scientific research contexts are intimately tied to the nature of evidence and accountability within particular social situations. Studying metadata can (1) provide insight into the production of evidence, that is, how something we might call 'data' becomes able to serve an evidentiary role, and (2) provide a mechanism for revealing what people in research contexts are held , and what they achieve .
Topics: Metadata; Research Design
PubMed: 31354073
DOI: 10.1177/0306312719863494 -
Genome Biology Apr 2021
Topics: Access to Information; Databases, Factual; Humans; Metadata
PubMed: 33858487
DOI: 10.1186/s13059-021-02332-z -
BMC Genomic Data Nov 2022While data sharing increases, most open data are difficult to re-use or to identify due to the lack of related metada. In this editorial, I discussed about the...
While data sharing increases, most open data are difficult to re-use or to identify due to the lack of related metada. In this editorial, I discussed about the importance of those metadata in the context of genomic, and why they are mandatory to ensure the success of data sharing.
Topics: Metadata; Information Dissemination; Genomics
PubMed: 36371151
DOI: 10.1186/s12863-022-01095-1 -
Nature Biotechnology Dec 2022Human untargeted metabolomics studies annotate only ~10% of molecular features. We introduce reference-data-driven analysis to match metabolomics tandem mass...
Human untargeted metabolomics studies annotate only ~10% of molecular features. We introduce reference-data-driven analysis to match metabolomics tandem mass spectrometry (MS/MS) data against metadata-annotated source data as a pseudo-MS/MS reference library. Applying this approach to food source data, we show that it increases MS/MS spectral usage 5.1-fold over conventional structural MS/MS library matches and allows empirical assessment of dietary patterns from untargeted data.
Topics: Humans; Tandem Mass Spectrometry; Metadata; Metabolomics
PubMed: 35798960
DOI: 10.1038/s41587-022-01368-1