SpadaHC: a database to improve the classification of variants in hereditary cancer genes in the Spanish population
Mostra el registre complet Registre parcial de l'ítem
- dc.contributor.author Moreno-Cabrera, José M.
- dc.contributor.author Bigas Salvans, Anna
- dc.contributor.author Lázaro, Conxi
- dc.date.accessioned 2025-04-17T06:09:32Z
- dc.date.available 2025-04-17T06:09:32Z
- dc.date.issued 2024
- dc.description.abstract Accurate classification of genetic variants is crucial for clinical decision-making in hereditary cancer. In Spain, genetic diagnostic laboratories have traditionally approached this task independently due to the lack of a dedicated resource. Here we present SpadaHC, a web-based database for sharing variants in hereditary cancer genes in the Spanish population. SpadaHC is implemented using a three-tier architecture consisting of a relational database, a web tool and a bioinformatics pipeline. Contributing laboratories can share variant classifications and variants from individuals in Variant Calling Format (VCF) format. The platform supports open and restricted access, flexible dataset submissions, automatic pseudo-anonymization, VCF quality control, variant normalization and liftover between genome builds. Users can flexibly explore and search data, receive automatic discrepancy notifications and access SpadaHC population frequencies based on many criteria. In February 2024, SpadaHC included 18 laboratory members, storing 1.17 million variants from 4306 patients and 16 343 laboratory classifications. In the first analysis of the shared data, we identified 84 genetic variants with clinically relevant discrepancies in their classifications and addressed them through a three-phase resolution strategy. This work highlights the importance of data sharing to promote consistency in variant classifications among laboratories, so patients and family members can benefit from more accurate clinical management. Database URL: https://spadahc.ciberisciii.es/.
- dc.format.mimetype application/pdf
- dc.identifier.citation Moreno-Cabrera JM, Feliubadaló L, Pineda M, Prada-Dacasa P, Ramos-Muntada M, Del Valle J, et al. SpadaHC: a database to improve the classification of variants in hereditary cancer genes in the Spanish population. Database (Oxford). 2024 Jul 4;2024:baae055. DOI: 10.1093/database/baae055
- dc.identifier.doi http://dx.doi.org/10.1093/database/baae055
- dc.identifier.issn 1758-0463
- dc.identifier.uri http://hdl.handle.net/10230/70158
- dc.language.iso eng
- dc.publisher Oxford University Press
- dc.relation.ispartof Database (Oxford). 2024 Jul 4;2024:baae055
- dc.rights © The Author(s) 2024. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
- dc.rights.accessRights info:eu-repo/semantics/openAccess
- dc.rights.uri http://creativecommons.org/licenses/by/4.0/
- dc.subject.other Gens del càncer
- dc.subject.other Càncer--Aspectes genètics
- dc.title SpadaHC: a database to improve the classification of variants in hereditary cancer genes in the Spanish population
- dc.type info:eu-repo/semantics/article
- dc.type.version info:eu-repo/semantics/publishedVersion