Database : the journal of biological databases and curation
May 15, 2021
Crop phenotypic data underpin many pre-breeding efforts to characterize variation within germplasm collections. Although there has been an increase in the global capacity for accumulating and comparing such data, a lack of consistency in the systemat...
Database : the journal of biological databases and curation
Apr 29, 2021
High-quality metadata annotations for data hosted in large public repositories are essential for research reproducibility and for conducting fast, powerful and scalable meta-analyses. Currently, a majority of sequencing samples in the National Center...
Studies in health technology and informatics
Sep 3, 2019
The German Center for Lung Research (DZL) is a research network with the aim of researching respiratory diseases. In order to enable consortium-wide retrospective research and prospective patient recruitment, we perform data integration into a centra...
Studies in health technology and informatics
Aug 21, 2019
OBJECTIVE: To characterize the scientific reproducibility of biomedical research studies by query and analysis of semantic provenance graphs generated from provenance metadata terms extracted from PubMed articles.
Knowledge discovery via an informatics resource is constrained by the completeness of the resource, both in terms of the amount of data it contains and in terms of the metadata that exists to describe the data. Increasing completeness in one of these...
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
Jan 1, 2019
Phylogeography research involving virus spread and tree reconstruction relies on accurate geographic locations of infected hosts. Insufficient level of geographic information in nucleotide sequence repositories such as GenBank motivates the use of na...
MOTIVATION: The ever-increasing number of biomedical datasets provides tremendous opportunities for re-use but current data repositories provide limited means of exploration apart from text-based search. Ontological metadata annotations provide conte...
Studies in health technology and informatics
Jan 1, 2018
Metadata management is an important task in medical informatics and highly affects the gain out of existing health information data. Data Warehouse solutions like Informatics for Integrating Biology and the Bedside (i2b2) are common tools for identif...
Database : the journal of biological databases and curation
Jan 1, 2018
Many life science datasets are now available via Linked Data technologies, meaning that they are represented in a common format (the Resource Description Framework), and are accessible via standard APIs (SPARQL endpoints). While this is an important ...
Studies in health technology and informatics
Jan 1, 2018
Performing image feature extraction in radiation oncology is often dependent on the organ and tumor delineations provided by clinical staff. These delineation names are free text DICOM metadata fields resulting in undefined information, which require...
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