MOTIVATION: The NCBI's Sequence Read Archive (SRA) promises great biological insight if one could analyze the data in the aggregate; however, the data remain largely underutilized, in part, due to the poor structure of the metadata associated with ea...
OBJECTIVES: The practice of evidence-based medicine involves integrating the latest best available evidence into patient care decisions. Yet, critical barriers exist for clinicians' retrieval of evidence that is relevant for a particular patient from...
The value of broadening searches for data across multiple repositories has been identified by the biomedical research community. As part of the US National Institutes of Health (NIH) Big Data to Knowledge initiative, we work with an international com...
AMIA ... Annual Symposium proceedings. AMIA Symposium
Jan 1, 2017
Scientific reproducibility is critical for biomedical research as it enables us to advance science by building on previous results, helps ensure the success of increasingly expensive drug trials, and allows funding agencies to make informed decisions...
Studies in health technology and informatics
Jan 1, 2017
To handle differences in affiliation names submitted with biomedical journal articles, we build an affiliation knowledge base named Authority File for Affiliations (AFA) based on ontology principles. There are currently 113,700 affiliation concepts w...
Journal of the American Medical Informatics Association : JAMIA
Jan 1, 2017
OBJECTIVE: Our objective is to test the limits of the assumption that better learning from data in medicine requires more granular data. We hypothesize that clinical trial metadata contains latent scientific, clinical, and regulatory expert knowledge...
AMIA ... Annual Symposium proceedings. AMIA Symposium
Jan 1, 2016
Scientific reproducibility is key to scientific progress as it allows the research community to build on validated results, protect patients from potentially harmful trial drugs derived from incorrect results, and reduce wastage of valuable resources...
Database : the journal of biological databases and curation
Jan 1, 2016
Crowdsourcing is increasingly utilized for performing tasks in both natural language processing and biocuration. Although there have been many applications of crowdsourcing in these fields, there have been fewer high-level discussions of the methodol...
The Ontology for Biomedical Investigations (OBI) is an ontology that provides terms with precisely defined meanings to describe all aspects of how investigations in the biological and medical domains are conducted. OBI re-uses ontologies that provide...