| Beacon | A GA4GH standard for genomic data discovery, allowing users to query whether a specific genetic variant exists in a dataset without revealing individual-level data. | [GA4GH] |
| DCAT-AP | Data Catalogue Vocabulary - Application Profile. A European standard for describing public sector datasets to enable cross-portal search. | [EU Semantics] |
| HealthDCAT-AP | An extension of DCAT-AP tailored for the health domain, specifically for the European Health Data Space (EHDS). | [GDI_D8.7] |
| LS-AAI | Life Science Authentication and Authorization Infrastructure. A federated identity service for the life science research community. | [GDI_D4.3] |
| OMOP CDM | Observational Medical Outcomes Partnership Common Data Model. A standard for harmonizing disparate observational health databases. | [OHDSI] |
| Phenopackets | A GA4GH standard for sharing disease and phenotype information, enabling compuatable clinical data exchange. | [GA4GH] |
| REMS | Resource Entitlement Management System. A tool for managing access rights to research data resources, automating the application and approval process. | [CSC] |
| RO-Crate | Research Object Crate. A community effort to establish a lightweight approach to packaging research data with their metadata. | [ResearchObject] |
| TRE | Trusted Research Environment. A secure computing environment where researchers can access and analyze sensitive data without being able to download it. | [GDI_D8.4] |
| WfExS | Workflow Execution Service. A backend engine capable of executing workflows (e.g., Nextflow, CWL) in a secure and reproducible manner, often using RO-Crates. | [GDI_D8.8] |
| Knowledge Base | In the context of 1+MG, a system where data is not just stored (Repository) but curated, harmonized, and annotated to support advanced discovery. | [GDI_D2.7] |
| Sunflower Model | A metadata modeling strategy consisting of a shared Core (DCAT), domain-specific Rings (HealthDCAT), and project-specific Petals (e.g., Cancer specific fields) to balance harmonization with flexibility. | [GDI_D8.7] |
| htsget | A GA4GH standard protocol for accessing secure, high-throughput sequencing data (reads and variants) by streaming only the requested genomic regions. | [GA4GH] |
| JSLT | JSON Query and Transformation Language. A query and transformation language for JSON used to map internal node data models to standard API payloads (e.g., Beacon). | [GDI_D8.7] |
| SemPyRO | Semantic Programming with Python and RDF Ontologies. A tool to validate and transform metadata into semantic standards like DCAT-AP. | [GDI_D4.3] |
| MOLGENIS | Open-source data platform used as a reference implementation for GDI Local Portals, supporting EMX2 models and Beacon v2 interfaces. | [GDI_D8.7] |
| Flower | A friendly federated learning framework. Used in GDI to orchestrate model training across distributed nodes without sharing raw data. | [GDI_D8.8] |
| MLFlow | An open source platform for the machine learning lifecycle, used to track experiments and manage models in the federated learning infrastructure. | [GDI_D8.4] |
| GDI | Genomic Data Infrastructure. The project implementing the 1+MG initiative's technical infrastructure. | [GDI] |
| 1+MG | 1+ Million Genomes Initiative. A European initiative to enable secure access to genomics and corresponding clinical data across Europe. | [1+MG] |
| Beacon | A GA4GH standard for genomic data discovery, allowing users to query whether a specific genetic variant exists in a dataset without revealing individual-level data. | [GA4GH] |
| BRIF | Bioresource Research Impact Factor. An initiative and indicator to recognise the value of bioresources in research and allowing their citation. | [B1MG_D2.4] |
| CoBRA | Citation of BioResources in Journal Articles. A guideline to standardize the citation of bioresources in scholarly articles. | [B1MG_D2.4] |
| DAC | Data Access Committee. A body responsible for reviewing and deciding on data access requests based on ELSI and scientific criteria. | [B1MG_D2.4] |
| DCA | Data Collaboration Agreement. A contract producing a framework for data use within a specific collaboration, often when multiple parties contribute data or resources. | [B1MG_D2.4] |
| DCAT-AP | Data Catalogue Vocabulary - Application Profile. A European standard for describing public sector datasets to enable cross-portal search. | [EU Semantics] |
| DTA | Data Transfer Agreement. A legal contract governing the transfer of data between organizations, defining rights, obligations, and restrictions. | [B1MG_D2.4] |
| Five Safes | A framework for designing secure data access: Safe Projects, Safe People, Safe Data, Safe Settings, and Safe Outputs. Used to support Data Protection by Design. | [B1MG_D2.4] |
| Flower | A friendly federated learning framework. Used in GDI to orchestrate model training across distributed nodes without sharing raw data. | [GDI_D8.8] |
| GDI | Genomic Data Infrastructure. The project implementing the 1+MG initiative's technical infrastructure. | [GDI] |
| GoE | Genome of Europe. A multi-country project to establish a European network of national genomic reference cohorts. | [GDI_D7.1] |
| HealthDCAT-AP | An extension of DCAT-AP tailored for the health domain, specifically for the European Health Data Space (EHDS). | [GDI_D8.7] |
| htsget | A GA4GH standard protocol for accessing secure, high-throughput sequencing data (reads and variants) by streaming only the requested genomic regions. | [GA4GH] |
| JSLT | JSON Query and Transformation Language. A query and transformation language for JSON used to map internal node data models to standard API payloads (e.g., Beacon). | [GDI_D8.7] |
| Knowledge Base | In the context of 1+MG, a system where data is not just stored (Repository) but curated, harmonized, and annotated to support advanced discovery. | [GDI_D2.7] |
| LS-AAI | Life Science Authentication and Authorization Infrastructure. A federated identity service for the life science research community. | [GDI_D4.3] |
| MLFlow | An open source platform for the machine learning lifecycle, used to track experiments and manage models in the federated learning infrastructure. | [GDI_D8.4] |
| MOLGENIS | Open-source data platform used as a reference implementation for GDI Local Portals, supporting EMX2 models and Beacon v2 interfaces. | [GDI_D8.7] |
| MTA | Material Transfer Agreement. A contract that governs the transfer of tangible research materials (e.g., biological samples) between two organizations. | [B1MG_D2.4] |
| OMOP CDM | Observational Medical Outcomes Partnership Common Data Model. A standard for harmonizing disparate observational health databases. | [OHDSI] |
| Phenopackets | A GA4GH standard for sharing disease and phenotype information, enabling compuatable clinical data exchange. | [GA4GH] |
| REMS | Resource Entitlement Management System. A tool for managing access rights to research data resources, automating the application and approval process. | [CSC] |
| RO-Crate | Research Object Crate. A community effort to establish a lightweight approach to packaging research data with their metadata. | [ResearchObject] |
| SemPyRO | Semantic Programming with Python and RDF Ontologies. A tool to validate and transform metadata into semantic standards like DCAT-AP. | [GDI_D4.3] |
| SPE | Secure Processing Environment. A secure IT environment for data processing, ensuring confidentiality, integrity, and availability, and preventing unauthorized export. | [B1MG_D2.4] |
| Sunflower Model | A metadata modeling strategy consisting of a shared Core (DCAT), domain-specific Rings (HealthDCAT), and project-specific Petals (e.g., Cancer specific fields) to balance harmonization with flexibility. | [GDI_D8.7] |
| TRE | Trusted Research Environment. Synonym for Secure Processing Environment (SPE). Secure computing area for analyzing sensitive data. | [GDI_D8.4] |
| WfExS | Workflow Execution Service. A backend engine capable of executing workflows (e.g., Nextflow, CWL) in a secure and reproducible manner, often using RO-Crates. | [GDI_D8.8] |
| FitSM | A lightweight standard for IT service management (ITSM) used by 1+MG to define policies and service levels. | [GDI-MS13] |
| SOP | Standard Operating Procedure. Detailed, written instructions to achieve uniformity of the performance of a specific function. Backbone of GDI compliance. | [GDI-MS13] |
| PETs | Privacy Enhancing Technologies. A class of technologies (DP, HE, MPC) designed to maximize data privacy. Currently considered experimental in GDI. | [GDI_D8.6] |
| DP | Differential Privacy. A technique to add noise to query results (e.g., Beacon counts) to prevent re-identification of individuals. | [GDI_D8.6] |
| HE | Homomorphic Encryption. A cryptographic method allowing computation on encrypted data without decryption. Currently too slow for GDI production use. | [GDI_D8.6] |
| MPC | Multiparty Computation. A cryptographic protocol where multiple parties jointly compute a function over their inputs while keeping them private. | [GDI_D8.6] |
| Airlock | A security mechanism in the SPE that strictly controls data ingest and egress, ensuring manual or automated review of all files entering or leaving the secure zone. | [TRE-FX] |
| TRE-FX | Trusted Research Environment Data Federation. A reference architecture and software stack for secure, federated data analysis used by GDI. | [GDI_D8.4] |