Abstract
Dynamic development of biobanking industry (both business and science) resulted in an increased number of IT systems for samples and data management. The most difficult and complicated case for the biobanking community was cooperation between institutions, equipped with different IT systems, in the field of scientific research, mainly data interchange and information flow. Tools available on the market relate mainly to the biobank or collection level. Efficient and universal protocols including the detailed information about the donor and the sample are still very limited. Here, we have developed BioSCOOP, a communication protocol in the form of a well documented JSON API. The main aim of this study was to harmonize and standardize the rules of communication between biobanks on the level of information about the donor together with information about the sample. The purpose was to create a communication protocol for two applications: to transfer the information between different biobanks and to allow the searching and presentation of the sample and data sets.
Highlights
Every organization, sooner or later will have to face the problem of difficulties in communication
There are many standards for sample management implemented by biorepositories which touch upon issues of donor-sample description [12,13,14], sample SOPs [15,16,17], directories of biological material collections [16,18], ontology of collections and biobanks [18,19,20,21,22,23,24,25,26,27,28,29], network and integration protocols for biobanks [30,31,32,33,34,35,36], or even biobank-biobank matching algorithms [37]
The proposed standard joins different ontologies used in sample-donor description models such as MIABIS, BRISQ etc., use recognised disease ontologies e.g. ICD-10, with parameters used in ergonomics, anthropometry and biomechanics e.g. ISO-TC159/SC3: it collectively provides effective networking and resource sharing between biobanks
Summary
Sooner or later will have to face the problem of difficulties in communication. Due to varying specific features of biomedical facilities or biobanks worldwide, IT solutions for sample information and management are often tailor-made for biorepositories, stemming directly from the type of basic research, used biological material, storage requirements or survey restrictions [5]. These internal standards become a challenge for biobank- to biobank communication or data exchange throughout biobanking networks, primarily created for facilitation of data interchange.
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