Dataset Information

GA4GH Passport standard for digital identity and access permissions.

ABSTRACT: The Global Alliance for Genomics and Health (GA4GH) supports international standards that enable a federated data sharing model for the research community while respecting data security, ethical and regulatory frameworks, and data authorization and access processes for sensitive data. The GA4GH Passport standard (Passport) defines a machine-readable digital identity that conveys roles and data access permissions (called "visas") for individual users. Visas are issued by data stewards, including data access committees (DACs) working with public databases, the entities responsible for the quality, integrity, and access arrangements for the datasets in the management of human biomedical data. Passports streamline management of data access rights across data systems by using visas that present a data user's digital identity and permissions across organizations, tools, environments, and services. We describe real-world implementations of the GA4GH Passport standard in use cases from ELIXIR Europe, National Institutes of Health, and the Autism Sharing Initiative. These implementations demonstrate that the Passport standard has provided transparent mechanisms for establishing permissions and authorizing data access across platforms.

SUBMITTER: Voisin C

PROVIDER: S-EPMC8591913 | biostudies-literature | 2021 Nov

REPOSITORIES: biostudies-literature

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GA4GH Passport standard for digital identity and access permissions.

Voisin Craig C Linden Mikael M Dyke Stephanie O M SOM Bowers Sarion R SR Alper Pinar P Barkley Maxmillian P MP Bernick David D Chao Jianpeng J Courtot Mélanie M Jeanson Francis F Konopko Melissa A MA Kuba Martin M Lawson Jonathan J Leinonen Jaakko J Li Stephanie S Ota Wang Vivian V Philippakis Anthony A AA Reinold Kathy K Rushton Gregory A GA Spalding J Dylan JD Törnroos Juha J Tulchinsky Ilya I Guidry Auvil Jaime M JM Nyrönen Tommi H TH

Cell genomics 20211110 2

The Global Alliance for Genomics and Health (GA4GH) supports international standards that enable a federated data sharing model for the research community while respecting data security, ethical and regulatory frameworks, and data authorization and access processes for sensitive data. The GA4GH Passport standard (Passport) defines a machine-readable digital identity that conveys roles and data access permissions (called "visas") for individual users. Visas are issued by data stewards, including ...[more]

PMID: 34820660

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Project description:BackgroundDigital Imaging and Communications in Medicine (DICOM®) is the standard for the representation, storage, and communication of medical images and related information. A DICOM file format and communication protocol for pathology have been defined; however, adoption by vendors and in the field is pending. Here, we implemented the essential aspects of the standard and assessed its capabilities and limitations in a multisite, multivendor healthcare network.MethodsWe selected relevant DICOM attributes, developed a program that extracts pixel data and pixel-related metadata, integrated patient and specimen-related metadata, populated and encoded DICOM attributes, and stored DICOM files. We generated the files using image data from four vendor-specific image file formats and clinical metadata from two departments with different laboratory information systems. We validated the generated DICOM files using recognized DICOM validation tools and measured encoding, storage, and access efficiency for three image compression methods. Finally, we evaluated storing, querying, and retrieving data over the web using existing DICOM archive software.ResultsWhole slide image data can be encoded together with relevant patient and specimen-related metadata as DICOM objects. These objects can be accessed efficiently from files or through RESTful web services using existing software implementations. Performance measurements show that the choice of image compression method has a major impact on data access efficiency. For lossy compression, JPEG achieves the fastest compression/decompression rates. For lossless compression, JPEG-LS significantly outperforms JPEG 2000 with respect to data encoding and decoding speed.ConclusionImplementation of DICOM allows efficient access to image data as well as associated metadata. By leveraging a wealth of existing infrastructure solutions, the use of DICOM facilitates enterprise integration and data exchange for digital pathology.

Dataset Information

GA4GH Passport standard for digital identity and access permissions.

Publications

GA4GH Passport standard for digital identity and access permissions.

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