ArticleJournal of the Medical Library Association : JMLA2010
Biomedical text summarization to support genetic database curation: using Semantic MEDLINE to create a secondary database of genetic information.
Article in Journal of the Medical Library Association : JMLA, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- A semantic relationship mining method among disorders, genes, and drugs from different biomedical datasets.BMC medical informatics and decision making · 2020Article
- Figure-associated text summarization and evaluation.PloS one · 2015Article
- A Framework of Knowledge Integration and Discovery for Supporting Pharmacogenomics Target Predication of Adverse Drug Events: A Case Study of Drug-Induced Long QT Syndrome.AMIA Joint Summits on Translational Science proceedings. AMIA Joint Summits on Translational Science · 2013Article
- Text summarization as a decision support aid.BMC medical informatics and decision making · 2012Article
- Rethinking information delivery: using a natural language processing application for point-of-care data discovery.Journal of the Medical Library Association : JMLA · 2012Article
- Using SemRep to label semantic relations extracted from clinical text.AMIA ... Annual Symposium proceedings. AMIA Symposium · 2012Article
- Degree centrality for semantic abstraction summarization of therapeutic studies.Journal of biomedical informatics · 2011Article
- Dynamic summarization of bibliographic-based data.BMC medical informatics and decision making · 2011Article
- Article
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Authors and funding
4 authors.
Funding
Abstract
objectiveThis paper examines the development and evaluation of an automatic summarization system in the domain of molecular genetics. The system is a potential component of an advanced biomedical information management application called Semantic MEDLINE and could assist librarians in developing secondary databases of genetic information extracted from the primary literature.
methodsAn existing summarization system was modified for identifying biomedical text relevant to the genetic etiology of disease. The summarization system was evaluated on the task of identifying data describing genes associated with bladder cancer in MEDLINE citations. A gold standard was produced using records from Genetics Home Reference and Online Mendelian Inheritance in Man. Genes in text found by the system were compared to the gold standard. Recall, precision, and F-measure were calculated.
resultsThe system achieved recall of 46%, and precision of 88% (F-measure=0.61) by taking Gene References into Function (GeneRIFs) into account.
conclusionThe new summarization schema for genetic etiology has potential as a component in Semantic MEDLINE to support the work of data curators.
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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.