Enhancing Semantic Interoperability in Precision Medicine: Converting OMOP CDM to Beacon v2 in the Spanish IMPaCT- Data Project DOI Creative Commons
Manuel Rueda, Juan Manuel Ramírez‐Anguita,

Victoria López-Sánchez

et al.

medRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Dec. 28, 2024

Abstract Objective To introduce novel methods to convert OMOP CDM data into GA4GH Beacon v2 format, enhancing semantic interoperability within Spain’s IMPaCT-Data program for personalized medicine. Materials and Methods We utilized a file-based approach with the Convert-Pheno tool transform exports format. Additionally, we developed direct connection from PostgreSQL API, enabling real-time access without intermediary text files. Results successfully converted datasets three research centers (CNAG, IIS La Fe, HMar) format nearly 100% completeness. The improved freshness adaptability dynamic environments. Discussion Conclusion This study introduces two methodologies integrating v2, offering performance optimization or access. These can be adopted by other enhance collaboration in health sharing.

Language: Английский

Enhancing Semantic Interoperability in Precision Medicine: Converting OMOP CDM to Beacon v2 in the Spanish IMPaCT- Data Project DOI Creative Commons
Manuel Rueda, Juan Manuel Ramírez‐Anguita,

Victoria López-Sánchez

et al.

medRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Dec. 28, 2024

Abstract Objective To introduce novel methods to convert OMOP CDM data into GA4GH Beacon v2 format, enhancing semantic interoperability within Spain’s IMPaCT-Data program for personalized medicine. Materials and Methods We utilized a file-based approach with the Convert-Pheno tool transform exports format. Additionally, we developed direct connection from PostgreSQL API, enabling real-time access without intermediary text files. Results successfully converted datasets three research centers (CNAG, IIS La Fe, HMar) format nearly 100% completeness. The improved freshness adaptability dynamic environments. Discussion Conclusion This study introduces two methodologies integrating v2, offering performance optimization or access. These can be adopted by other enhance collaboration in health sharing.

Language: Английский

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