ArticleAMIA ... Annual Symposium proceedings. AMIA Symposium
Employing complex polyhierarchical ontologies and promoting interoperability of i2b2 data systems.
Article in AMIA ... Annual Symposium proceedings. AMIA Symposium. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
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
3 citing papers in PubMed.
- Characterizing Basic and Complex Usage of i2b2 at an Academic Medical Center.AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science · 2020Article
- Automated Population of an i2b2 Clinical Data Warehouse using FHIR.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2018Article
- Using Closure Tables to Enable Cross-Querying of Ontologies in Database-Driven Applications.... IEEE-EMBS International Conference on Biomedical and Health Informatics. IEEE-EMBS International Conference on Biomedical and Health Informatics · 2017Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
I2b2 is in widespread use for managing research data warehouses. It employs reference ontologies as a record index and supports searching for aggregate cases using a pattern match operator on ASCII strings representing the node traversal from root to concept(PATHs). This creates complexities in dissemination and deployment for large polyhierarchical ontologies such as SNOMED CT. We hypothesized that an alternative approach employing transitive closure tables (TC) could lead to more accurate, efficient and interoperable search tools for i2b2. We evaluated search speed, accuracy and interoperability of queries employing each approach. We found both TC-based and PATH-based queries to produce accurate results. However, we observed that TC-based queries involving concepts included in large numbers of paths ran substantially faster than PATH-based queries for the same concept. Oracle query plan resource estimates differed by one to three orders of magnitude for these queries. We conclude that a simplification of dissemination tools for SNOMED CT and revision in the metadata build for i2b2 can effectively employ SNOMED CT with increased efficiency and comparable accuracy. Use of transitive closure tables in metadata can promote network query interoperability.
Indexed as
Identifiers
26958167PMC4765692What OpenQuestion holds
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.