by Admin | Jan 31, 2025 | Hereditary
One of the HEREDITARY project’s aims is to enhance the usability and impact of data generated and collected within the consortium by ensuring that it adheres to the FAIR principles — Findable, Accessible, Interoperable, and Reusable. This is addressed in Task 3.6 FAIRification workflows and 1+MG guidelines compliance, led by EMBL, one of the partners in the consortium.
By applying these principles, researchers can enhance the impact and visibility of their work, improve reproducibility, and foster collaboration. FAIR data is easier to discover, understand, and integrate with other datasets, leading to new insights and innovative approaches. Controlled Access data can also be FAIR, ensuring data is as open as possible and as closed as necessary, maximizing its potential value in scientific research and beyond while complying with data privacy.
With the collaboration of the project’s data contributors, we will demonstrate how applying FAIRification workflows not only strengthens compliance with international guidelines (e.g., 1+MG, GA4GH) but also improves data discoverability and fosters cross-domain research, one of the focal points of HEREDITARY.
The process of FAIRification can benefit (meta)data collected within the HEREDITARY project, but also reused data obtained from other resources (e.g., EGA) and even synthetic data. Ensuring that data in HEREDITARY is FAIR could involve the following aspects:
✅ Better Metadata – Standardized metadata makes datasets easier to find and understand, even if access is restricted.
✅ Federated Integration – Harmonizing metadata across institutions enables large-scale comparisons and analysis.
✅ Interoperability – Aligning with European standards ensures seamless collaboration with other projects.
✅ Clear Data Policies – Defining usage and sharing conditions simplifies access while protecting sensitive data.
✅ Sustainability – Licensing and versioning ensure datasets remain useful beyond the project’s lifetime.
To sum up, by embracing FAIR principles, HEREDITARY strengthens its data ecosystem, making genomic research more efficient and impactful.
by Admin | Jan 22, 2025 | Events
The HEREDITARY project is taking part in the GutBrainIE CLEF 2025 challenge, as part of the BioASQ Workshop (Task #6) that will be held as a Lab in CLEF 2025, on September 9-12, 2025, in Madrid, Spain. This initiative offers a unique opportunity for researchers and developers to contribute to the advancing field of Natural Language Processing (NLP) and biomedical research.
This year’s challenge focuses on extracting structured information (concepts, relationships, and term variants) from biomedical texts related to the gut microbiota, and its critical connections with Parkinson’s disease and mental health. As new insights into the gut-brain axis continue to emerge, this challenge is a vital initiative for the scientific community to explore further the complex interplay between gut health and neurological disorders.
The GutBrainIE task is divided into two main subtasks. In the first one, participants are asked to identify and classify specific text spans into predefined categories. In contrast, in the second one, they must determine if a particular relationship defined between two categories holds or not. The submitted runs are evaluated based on Precision, Recall, and F1 measures for each subtask using gold annotations created by domain experts.
Important Dates
- Registration Deadline: April 25, 2025
- Test Data Release: April 28, 2025
- Runs Submission Deadline: May 10, 2025
- Evaluation Results: May 19, 2025
- Workshop Dates: September 9-12, 2025, in Madrid, Spain
Don’t miss out on the chance to be part of this groundbreaking event! Register before April 25, 2025, and make your mark on the future of biomedical research.
by Admin | Jan 13, 2025 | Hereditary
As we mark the first year of the Hereditary project, we are thrilled to reflect on the significant milestones we’ve achieved together. This year has been a testament to our collective strength, collaboration, and shared commitment to success. With over 100 individuals from 18 institutions across Europe and the US, the Hereditary project has laid a solid foundation for what is sure to be a fruitful and impactful journey ahead.
One of our most notable achievements this year has been the delivery of 16 high-quality deliverables, all on time, demonstrating our efficiency and dedication to project development. We are particularly proud of our December (12th month of the project) performance, where we successfully delivered 7 deliverables, ensuring we closed the year with impressive momentum. These deliverables are now available on our website, and we encourage anyone interested to consult those that are publicly accessible, on our zenodo profile.
16 deliverables in 12 months of existence
The deliverables produced during this first year of the project materialise the consortium’s progress in several of the 5 interconnected layers that make up the project will develop to integrate multimodal health data.
- Regarding the Federated Networking Infrastructure, we have defined the ethical guidelines for data collection and sharing for model training, as outlined in Deliverable 2.1 (D2.1) led by Università degli Studi di Torino (UNITO). Additionally, we set up the local computing and storage infrastructures in the medical centers, documented in D2.14, led by SURF BV (SURF).
- In terms of the clinical use cases we focus on, and the data we work with, we have established guidelines for data harmonization and provided evidence-based criteria for the design of neurodegenerative in D2.16, and the documentation for all the required approvals for the clinical studies in D2.19, both led by UNITO. We also conducted the initial evaluation of the integrated brain-gut linkage and behavioral phenotyping for feature extraction in federated learning, documented in D2.3 led by Radboudumc (RUMC).
- In the Multimodal Semantic Integration Platform, we have developed the conceptual and linguistic systems that describe the medical terminology in D3.4 led by Universidade NOVA de Lisboa (UNL).
- An important milestone in the project has been the development of the semantic ontology modeling concepts and processes for neurological diseases (Amyotrophic Lateral Sclerosis and Multiple Sclerosis), which includes a preliminary online version of the semantic ontology focusing on these diseases, as well as the design of federated execution methods, documented in D3.1 led by Università degli Studi di Padova (UNIPD). It synthesizes WP2, WP3, and WP4 contributions to provide a comprehensive framework for integrating clinical and genomic data through advanced ontology design and scalable query execution frameworks.
- The Visual Analytics and Interaction layer has been enriched with the development of the initial conceptualization of the software libraries and documentation for visualization of sequences, networks, text, and high-dimensional data, as well as spatial, image, and simulation data, in the deliverables D5.1 and D5.3, led by Technische Universität Graz (TUGRAZ) and SURF.
In addition, during these first 12 months, Work Package 1 has built the architecture on which the management and execution of the project will be based, through the delivery of the Data Management Plan (D1.1, led by the European Molecular Biology Laboratory (EMBL)), the Quality Assurance and self-assessment Plan (D1.3, led by UNIPD) and the Risk Management Plan (D1.4, led by the European Brain Council (EBC)). In Work Package 6, guidelines for organising and implementing the Health Social Labs methodology were established in D6.1, elaborated by Observa Associazione (OBSERVA). In Work Package 7, KU Leuven developed the preliminary overview of the legal and ethical requirements applicable to the HEREDITARY project in D7.1. And, finally, FEUGA led through D8.1 and D8.4, the initial release of dissemination, communication, IP and exploitation plan, including the project webpage, Book of Style, and social media accounts creation.
What’s next for the HEREDITARY project?
Looking ahead to 2025, we are excited to build upon this motivation, continuing our collaborative efforts and addressing any uncertainties or questions openly to stay aligned. The groundwork for ongoing collaboration has been laid, and the future is bright. Big thanks to our partners and all the people involved in the project for their hard work and dedication. Now it’s time to focus on another year of success and growth in the Hereditary project!
Recent Comments