| Literature DB >> 35639939 |
Pavel Vazquez1, Kayoko Hirayama-Shoji1, Steffen Novik2, Stefan Krauss1,3, Simon Rayner1,4.
Abstract
MOTIVATION: Technical advances have revolutionized the life sciences and researchers commonly face challenges associated with handling large amounts of heterogeneous digital data. The Findable, Accessible, Interoperable and Reusable (FAIR) principles provide a framework to support effective data management. However, implementing this framework is beyond the means of most researchers in terms of resources and expertise, requiring awareness of metadata, policies, community agreements, and other factors such as vocabularies and ontologies.Entities:
Year: 2022 PMID: 35639939 PMCID: PMC9344842 DOI: 10.1093/bioinformatics/btac362
Source DB: PubMed Journal: Bioinformatics ISSN: 1367-4803 Impact factor: 6.931
Fig. 1.Schematic of a basic implementation of the GADDS platform. (a) Architecture. The platform is deployed as a Docker Swarm cluster. The schematic shows a platform architecture distributed across three organizations (Imperial College London; Oslo University Hospital, Oslo; and University of Bergen, Bergen). Each organization hosts a blockchain service provided by Hyperledger Fabric with two peers (EVC nodes) each of which are responsible for metadata validation (to ensure quality control) and metadata storage. The corresponding data are stored on a privately maintained cloud provided by MinIO, where data are split and replicated across the storage infrastructure. The version control system is provided by the Distributed Version Control (DIVECO) software and secure access to the platform is through a web browser. (b) User interaction. The user interacts with the GADDS platform through the web browser. During the upload, metadata is submitted for storage and validation to the blockchain service using a simple form. After the metadata is validated, the user is allowed to upload data to the cloud. During the download, the user searches the blockchain’s ledger for stored and validated metadata; once the metadata is retrieved, the user is able to download the associated data
Fig. 2.Schematic of a basic implementation of the GADDS platform. (a) Architecture example. Manufacture and measurement of microfibres. Experiments were conducted by the Tissue Engineering Group in the Hybrid Technology Hub, University of Oslo (UiO) and the Sensors group in the Department of Physics at UiO. (a) left: schematic of fiber manufacturing process. Fibers are formed by injecting a solution of HEK293 cells and bovine collagen through the central channel of a co-axial glass capillary nozzle, mixing with sodium alginate from the outer channel, and injecting into calcium chloride solution for crosslinking. After core-shell hydro-fibers are formed, they are transferred to culture medium and incubated. Right: microscope image of generated fibers. Generated fibers were characterized by measurement of inner and outer diameter at three points along the axis. (b) Schematic showing data collection and storage in the GADDS platform. Left: Manufacture and Measurement is performed in an iterative manner to determine relationships between experimental and measured parameters. Middle: Meta(data) upload to GADDS. Metadata is verified and stored in the ledger, and corresponding experimental data are stored in the cloud. Metadata and data are linked by a unique Data ID (DID). Right: successive measurements are added to the ledger. The bottom of the ledger shows a case where metadata has been modified, but still points to the same data