COPO: a metadata platform for brokering FAIR data in the life sciences

Abstract

Scientific innovation is increasingly reliant on data and computational resources. Much of today's life science research involves generating, processing, and reusing heterogeneous datasets that are growing exponentially in size. Demand for technical experts (data scientists and bioinformaticians) to process these data is at an all-time high, but these are not typically trained in good data management practices. That said, we have come a long way in the last decade, with funders, publishers, and researchers themselves making the case for open, interoperable data as a key component of an open science philosophy. In response, recognition of the FAIR Principles (that data should be Findable, Accessible, Interoperable and Reusable) has become commonplace. However, both technical and cultural challenges for the implementation of these principles still exist when storing, managing, analysing and disseminating both legacy and new data.COPO is a computational system that attempts to address some of these challenges by enabling scientists to describe their research objects (raw or processed data, publications, samples, images, etc.) using community-sanctioned metadata sets and vocabularies, and then use public or institutional repositories to share it with the wider scientific community. COPO encourages data generators to adhere to appropriate metadata standards when publishing research objects, using semantic terms to add meaning to them and specify relationships between them. This allows data consumers, be they people or machines, to find, aggregate, and analyse data which would otherwise be private or invisible. Building upon existing standards to push the state of the art in scientific data dissemination whilst minimising the burden of data publication and sharing. Availability:COPO is entirely open source and freely available on GitHub at https://github.com/collaborative-open-plant-omics . A public instance of the platform for use by the community, as well as more information, can be found at copo-project.org .

Digitale Zwillinge in der Bioprozesstechnik – Chancen und Möglichkeiten

“…B. welche verschiedenen Datensa ¨tze zu einem Experiment geho ¨ren; -technische Metadaten -geben Informationen u ¨ber die Gera ¨teeinstellungen oder die Durchfu ¨hrung der Datenanalyse; und -administrative Metadaten, sie geben Informationen u ¨ber den Autor, das Datum und die Vertraulichkeit. [9,16] Bislang gibt es nur wenige gemeinsame Standards fu ¨r Metadaten, die hauptsa ¨chlich fu ¨r bestimmte Datentypen definiert wurden, um diese in Datenbanken strukturiert sammeln zu ko ¨nnen [17][18][19]. Die verschiedenen Datenbanken verwenden unterschiedliche Dateiformate fu ¨r die Metadaten.…”

Realistic and Robust Reproducible Research for Biostatistics

“…The platform has some internal analysis and collaborative features such as specimen-sharing and secure data sharing capabilities, suitable for many types of biomedical data [Nelson et al, 2011], and is extensible through the addition of contributed specific data type modules. Another tool, which focuses on data management and submission to repositories is COPO (Collaborative Open Plant Omics), a metadata data annotation and data brokering platform [Etuk et al, 2019], especially for sequence data management and submission to the EMBL-EBI.…”