Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by

Same author

Update of the MSKCC nomogram for metastatic progression and its role in active surveillance: the Italian TPCP cohort.

Frontiers in oncology·2026

Same author

A FHIR Consent Profile for European Research Biobanks.

Studies in health technology and informatics·2026

Same author

A comprehensive European Colorectal Cancer Cohort dataset.

Scientific data·2026

Same author

An open-source platform for structured annotation and computational workflows in digital pathology research.

Scientific reports·2025

Same author

Linking the ECRIN Metadata Repository with the BBMRI-ERIC Directory to connect clinical studies with related biobanks and collections.

Open research Europe·2024

Same author

A survey of openEHR Clinical Data Repositories.

International journal of medical informatics·2024

Same journal

Invaders taking over-Mollusc faunal change in volcanic barrier lakes of the Albertine Rift biodiversity hotspot.

PloS one·2026

Same journal

AI-driven molecular diversification and ligand-based optimization of macitentan derivatives targeting VEGFR1 and endothelin signaling pathways.

PloS one·2026

Same journal

Performance patterns and records in the world aquatics masters championships: Where do the most frequently represented nations among the top-ten masters swimmers come from?

PloS one·2026

Same journal

Modeling diurnal Temperature-Rainfall relationships under multicollinearity using PLS-SEM: A case study of Ghana.

PloS one·2026

Same journal

Organizational culture, social capital, and emergency capacity in primary healthcare institutions: A cross-sectional structural equation modeling study comparing ordinary and older communities.

PloS one·2026

Same journal

Impact of kidney function on the metabolome in the general population.

PloS one·2026

See all related articles

Search research articles

Related Experiment Video

Updated: Mar 10, 2026

Databases to Efficiently Manage Medium Sized, Low Velocity, Multidimensional Data in Tissue Engineering

Databases to Efficiently Manage Medium Sized, Low Velocity, Multidimensional Data in Tissue Engineering

Published on: November 22, 2019

A Scalable Data Access Layer to Manage Structured Heterogeneous Biomedical Data.

Giovanni Delussu¹, Luca Lianas¹, Francesca Frexia¹

¹Data-Intensive Computing Group, CRS4, Pula, Italy.

|December 10, 2016

Summary

This summary is machine-generated.

PyEHR is a scalable data access layer for secondary use of biomedical data. It uses openEHR standards and structure indexing for efficient data management and retrieval, supporting complex clinical data structures.

More Related Videos

Executing Complexity-Increasing Queries in Relational MySQL and NoSQL MongoDB and EXist Size-Growing ISO/EN 13606 Standardized EHR Databases

Executing Complexity-Increasing Queries in Relational MySQL and NoSQL MongoDB and EXist Size-Growing ISO/EN 13606 Standardized EHR Databases

Published on: March 19, 2018

A Metadata Extraction Approach for Clinical Case Reports to Enable Advanced Understanding of Biomedical Concepts

A Metadata Extraction Approach for Clinical Case Reports to Enable Advanced Understanding of Biomedical Concepts

Published on: September 20, 2018

Related Experiment Videos

Last Updated: Mar 10, 2026

Databases to Efficiently Manage Medium Sized, Low Velocity, Multidimensional Data in Tissue Engineering

Databases to Efficiently Manage Medium Sized, Low Velocity, Multidimensional Data in Tissue Engineering

Published on: November 22, 2019

Executing Complexity-Increasing Queries in Relational MySQL and NoSQL MongoDB and EXist Size-Growing ISO/EN 13606 Standardized EHR Databases

Executing Complexity-Increasing Queries in Relational MySQL and NoSQL MongoDB and EXist Size-Growing ISO/EN 13606 Standardized EHR Databases

Published on: March 19, 2018

A Metadata Extraction Approach for Clinical Case Reports to Enable Advanced Understanding of Biomedical Concepts

A Metadata Extraction Approach for Clinical Case Reports to Enable Advanced Understanding of Biomedical Concepts

Published on: September 20, 2018

Area of Science:

Biomedical Informatics
Data Science
Health Informatics

Background:

Secondary use of clinical data requires efficient data management systems.
Heterogeneous biomedical data presents challenges for data integration and analysis.
Existing systems may lack scalability and flexibility for complex data structures.

Purpose of the Study:

To present PyEHR, a scalable data access layer for secondary use of structured biomedical and clinical data.
To leverage openEHR formalisms for data description decoupling and structure indexing to enhance search performance.
To evaluate the scalability of PyEHR using extensive testing on large, complex datasets.

Main Methods:

Developed PyEHR, a data access layer utilizing openEHR standards.
Implemented a driver layer with a common interface supporting NoSQL databases (MongoDB, Elasticsearch).
Conducted scalability tests ('Constant Load', 'Constant Number of Records') on synthetic datasets up to ten million records across ten nodes.

Main Results:

PyEHR demonstrates scalability for managing and querying complex, heterogeneous biomedical data.
Structure indexing effectively accelerates search operations within the PyEHR system.
The system successfully handled large datasets with intricate openEHR archetype structures.

Conclusions:

PyEHR provides a robust and scalable solution for secondary data analysis in healthcare.
The adoption of openEHR standards ensures interoperability and data description decoupling.
PyEHR's performance validates its potential for real-world clinical data management systems.