ArticleJournal of biomedical semantics2016
OBIB-a novel ontology for biobanking.
Article in Journal of biomedical semantics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
9 citing papers in PubMed.
- Next generation biobanking ontology: introducing-omics contextual data to biobanking ontology.Bioinformatics advances · 2025Article
- The use of foundational ontologies in biomedical research.Journal of biomedical semantics · 2023Review
- Assessing the Need for Semantic Data Integration for Surgical Biobanks-A Knowledge Representation Perspective.Journal of personalized medicine · 2022Article
- Evaluating and Extending the Informed Consent Ontology for Representing Permissions from the Clinical Domain.Applied ontology · 2022Article
- Extending the Minimum Information About BIobank Data Sharing Terminology to Describe Samples, Sample Donors, and Events.Biopreservation and biobanking · 2020Article
- Enhancing Clinical Data and Clinical Research Data with Biomedical Ontologies - Insights from the Knowledge Representation Perspective.Yearbook of medical informatics · 2019Article
- BioSCOOP - Biobank Sample Communication Protocol. New approach for the transfer of information between biobanks.Database : the journal of biological databases and curation · 2019Article
- DMTO: a realistic ontology for standard diabetes mellitus treatment.Journal of biomedical semantics · 2018Article
- Consensus-Driven Development of a Terminology for Biobanking, the Duke Experience.Biopreservation and biobanking · 2017Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
backgroundBiobanking necessitates extensive integration of data to allow data analysis and specimen sharing. Ontologies have been demonstrated to be a promising approach in fostering better semantic integration of biobank-related data. Hitherto no ontology provided the coverage needed to capture a broad spectrum of biobank user scenarios.
methodsBased in the principles laid out by the Open Biological and Biomedical Ontologies Foundry two biobanking ontologies have been developed. These two ontologies were merged using a modular approach consistent with the initial development principles. The merging was facilitated by the fact that both ontologies use the same Upper Ontology and re-use classes from a similar set of pre-existing ontologies.
resultsBased on the two previous ontologies the Ontology for Biobanking (http://purl.obolibrary.org/obo/obib.owl) was created. Due to the fact that there was no overlap between the two source ontologies the coverage of the resulting ontology is significantly larger than of the two source ontologies. The ontology is successfully used in managing biobank information of the Penn Medicine BioBank.
conclusionsSharing development principles and Upper Ontologies facilitates subsequent merging of ontologies to achieve a broader coverage.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.