ArticleProceedings : ... IEEE International Conference on Big Data. IEEE International Conference on Big Data2014
MaPLE: A MapReduce Pipeline for Lattice-based Evaluation and Its Application to SNOMED CT.
Article in Proceedings : ... IEEE International Conference on Big Data. IEEE International Conference on Big Data, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- Logical definition-based identification of potential missing concepts in SNOMED CT.BMC medical informatics and decision making · 2023Article
- Detecting missing IS-A relations in the NCI Thesaurus using an enhanced hybrid approach.BMC medical informatics and decision making · 2020Article
- A review of auditing techniques for the Unified Medical Language System.Journal of the American Medical Informatics Association : JAMIA · 2020Review
- Web-based Interactive Visualization of Non-Lattice Subgraphs (WINS) in SNOMED CT.AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science · 2020Article
- Assessing the practice of biomedical ontology evaluation: Gaps and opportunities.Journal of biomedical informatics · 2018Review
- Auditing SNOMED CT hierarchical relations based on lexical features of concepts in non-lattice subgraphs.Journal of biomedical informatics · 2018Article
- Mining non-lattice subgraphs for detecting missing hierarchical relations and concepts in SNOMED CT.Journal of the American Medical Informatics Association : JAMIA · 2017Article
- Spark-MCA: Large-scale, Exhaustive Formal Concept Analysis for Evaluating the Semantic Completeness of SNOMED CT.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2017Article
- Can SNOMED CT Changes Be Used as a Surrogate Standard for Evaluating the Performance of Its Auditing Methods?AMIA ... Annual Symposium proceedings. AMIA Symposium · 2017Article
- FEDRR: fast, exhaustive detection of redundant hierarchical relations for quality improvement of large biomedical ontologies.BioData mining · 2016Article
- Mining Relation Reversals in the Evolution of SNOMED CT Using MapReduce.AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science · 2015Article
- COBE: A Conjunctive Ontology Browser and Explorer for Visualizing SNOMED CT Fragments.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2015Article
- NEO: Systematic Non-Lattice Embedding of Ontologies for Comparing the Subsumption Relationship in SNOMED CT and in FMA Using MapReduce.AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science · 2015Article
- COHeRE: Cross-Ontology Hierarchical Relation Examination for Ontology Quality Assurance.AMIA ... Annual Symposium proceedings. AMIA SymposiumArticle
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Authors and funding
6 authors.
Funding
Abstract
Non-lattice fragments are often indicative of structural anomalies in ontological systems and, as such, represent possible areas of focus for subsequent quality assurance work. However, extracting the non-lattice fragments in large ontological systems is computationally expensive if not prohibitive, using a traditional sequential approach. In this paper we present a general MapReduce pipeline, called MaPLE (MapReduce Pipeline for Lattice-based Evaluation), for extracting non-lattice fragments in large partially ordered sets and demonstrate its applicability in ontology quality assurance. Using MaPLE in a 30-node Hadoop local cloud, we systematically extracted non-lattice fragments in 8 SNOMED CT versions from 2009 to 2014 (each containing over 300k concepts), with an average total computing time of less than 3 hours per version. With dramatically reduced time, MaPLE makes it feasible not only to perform exhaustive structural analysis of large ontological hierarchies, but also to systematically track structural changes between versions. Our change analysis showed that the average change rates on the non-lattice pairs are up to 38.6 times higher than the change rates of the background structure (concept nodes). This demonstrates that fragments around non-lattice pairs exhibit significantly higher rates of change in the process of ontological evolution.
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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.