2008 AnticipatingAnnotationsandEmerg

(Mörchen et al., 2008) ⇒ Fabian Mörchen, Mathäus Dejori, Dmitriy Fradkin, Julien Etienne, Bernd Wachmann, and Markus Bundschus. (2008). “Anticipating Annotations and Emerging Trends in Biomedical Literature.” In: Proceedings of the 14th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD-2008). doi:10.1145/1401890.1402004

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Abstract

The BioJournalMonitor is a decision support system for the analysis of trends and topics in the biomedical literature. Its main goal is to identify potential diagnostic and therapeutic biomarkers for specific diseases. Several data sources are continuously integrated to provide the user with up-to-date information on current research in this field. State-of-the-art text mining technologies are deployed to provide added value on top of the original content, including named entity detection, relation extraction, classification, clustering, ranking, summarization, and visualization. We present two novel technologies that are related to the analysis of temporal dynamics of text archives and associated ontologies. Currently, the MeSH ontology is used to annotate the scientific articles entering the PubMed database with medical terms. Both the maintenance of the ontology as well as the annotation of new articles is performed largely manually. We describe how probabilistic topic models can be used to annotate recent articles with the most likely MeSH terms. This provides our users with a competitive advantage because, when searching for MeSH terms, articles are found long before they are manually annotated. We further present a study on how to predict the inclusion of new terms in the MeSH ontology. The results suggest that early prediction of emerging trends is possible. The trend ranking functions are deployed in our system to enable interactive searches for the hottest new trends relating to a disease.

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	Author	volume	Date Value	title	type	journal	titleUrl	doi	note	year
2008 AnticipatingAnnotationsandEmerg	Markus Bundschus Fabian Mörchen Mathäus Dejori Dmitriy Fradkin Julien Etienne Bernd Wachmann			Anticipating Annotations and Emerging Trends in Biomedical Literature		KDD-2008 Proceedings		10.1145/1401890.1402004		2008