Journal
JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION
Volume 22, Issue 6, Pages 1148-1152Publisher
OXFORD UNIV PRESS
DOI: 10.1093/jamia/ocv048
Keywords
datasets as topic; data curation; data collection; standards; biological ontologies
Categories
Funding
- National Institute of Allergy and Infectious Diseases through trans-NIH Big Data to Knowledge (BD2K) initiative [U54 AI117925]
- BBSRC [BB/L024101/1, BB/J020265/1, BB/I025840/1, BB/I000771/1, BB/E025080/1] Funding Source: UKRI
- Biotechnology and Biological Sciences Research Council [BB/E025080/1, BB/I000771/1, BB/J020265/1, BB/I025840/1, BB/L024101/1] Funding Source: researchfish
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The Center for Expanded Data Annotation and Retrieval is studying the creation of comprehensive and expressive metadata for biomedical datasets to facilitate data discovery, data interpretation, and data reuse. We take advantage of emerging community-based standard templates for describing different kinds of biomedical datasets, and we investigate the use of computational techniques to help investigators to assemble templates and to fill in their values. We are creating a repository of metadata from which we plan to identify metadata patterns that will drive predictive data entry when filling in metadata templates. The metadata repository not only will capture annotations specified when experimental datasets are initially created, but also will incorporate links to the published literature, including secondary analyses and possible refinements or retractions of experimental interpretations. By working initially with the Human Immunology Project Consortium and the developers of the ImmPort data repository, we are developing and evaluating an end-to-end solution to the problems of metadata authoring and management that will generalize to other data-management environments.
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