J 2017

Conception and Implementation of an Austrian Biobank Directory Integration Framework

HOFER-PICOUT, Philipp, Horst PICHLER, Johann EDER, Sabrina B. NEURURER, Heimo MÜLLER et. al.

Basic information

Original name

Conception and Implementation of an Austrian Biobank Directory Integration Framework

Authors

HOFER-PICOUT, Philipp, Horst PICHLER, Johann EDER, Sabrina B. NEURURER, Heimo MÜLLER, Robert REIHS, Petr HOLUB (203 Czech Republic, belonging to the institution), Thomas INSAM and Georg GOEBEL

Edition

Biopreservation and Biobanking, NEW ROCHELLE, MARY ANN LIEBERT, INC, 2017, 1947-5535

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

10201 Computer sciences, information science, bioinformatics

Country of publisher

Canada

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

Impact factor

Impact factor: 1.827

RIV identification code

RIV/00216224:14610/17:00120330

Organization unit

Institute of Computer Science

DOI

UT WoS

000407512500007

Keywords in English

BBMRI; biobank directory; data integration; EDI interface; MIABIS; RESTful

Tags

International impact, Reviewed
Změněno: 6/5/2022 08:11, doc. RNDr. Petr Holub, Ph.D.

Abstract

V originále

Introduction: Sample collections and data are hosted within different biobanks at diverse institutions across Europe. Our data integration framework aims at incorporating data about sample collections from different biobanks into a common research infrastructure, facilitating researchers' abilities to obtain high-quality samples to conduct their research. The resulting information must be locally gathered and distributed to searchable higher level information biobank directories to maximize the visibility on the national and European levels. Therefore, biobanks and sample collections must be clearly described and unambiguously identified. We describe how to tackle the challenges of integrating biobank-related data between biobank directories using heterogeneous data schemas and different technical environments. Methods: To establish a data exchange infrastructure between all biobank directories involved, we propose the following steps: (A) identification of core entities, terminology, and semantic relationships, (B) harmonization of heterogeneous data schemas of different Biobanking and Biomolecular Resources Research Infrastructure (BBMRI) directories, and (C) formulation of technical core principles for biobank data exchange between directories. Results: (A) We identified the major core elements to describe biobanks in biobank directories. Since all directory data models were partially based on Minimum Information About BIobank Data Sharing (MIABIS) 2.0, the MIABIS 2.0 core model was used for compatibility. (B) Different projection scenarios were elaborated in collaboration with all BBMRI.at partners. A minimum set of mandatory and optional core entities and data items was defined for mapping across all directory levels. (C) Major core data exchange principles were formulated and data interfaces implemented by all biobank directories involved. Discussion: We agreed on a MIABIS 2.0-based core set of harmonized biobank attributes and established a list of data exchange core principles for integrating biobank directories on different levels. This generic approach and the data exchange core principles proposed herein can also be applied in related tasks like integration and harmonization of biobank data on the individual sample and patient levels.