A Field Sensor: computing the composition and intent of PubMed queries

Database : the Journal of Biological Databases and Curation
Lana YeganovaZhiyong Lu

Abstract

PubMed® is a search engine providing access to a collection of over 27 million biomedical bibliographic records as of 2017. PubMed processes millions of queries a day, and understanding these queries is one of the main building blocks for successful information retrieval. In this work, we present Field Sensor, a domain-specific tool for understanding the composition and predicting the user intent of PubMed queries. Given a query, the Field Sensor infers a field for each token or sequence of tokens in a query in multi-step process that includes syntactic chunking, rule-based tagging and probabilistic field prediction. In this work, the fields of interest are those associated with (meta-)data elements of each PubMed record such as article title, abstract, author name(s), journal title, volume, issue, page and date. We evaluate the accuracy of our algorithm on a human-annotated corpus of 10 000 PubMed queries, as well as a new machine-annotated set of 103 000 PubMed queries. The Field Sensor achieves an accuracy of 93 and 91% on the two corresponding corpora and finds that nearly half of all searches are navigational (e.g. author searches, article title searches etc.) and half are informational (e.g. topical searches). The Field S...Continue Reading

References

Jan 11, 2007·Journal of the American Medical Informatics Association : JAMIA·Jorge R HerskovicElmer V Bernstam
Sep 22, 2007·FASEB Journal : Official Publication of the Federation of American Societies for Experimental Biology·Matthew E FalagasGeorgios Pappas
Dec 15, 2007·Information Retrieval·W John WilburNatalie Xie
Apr 11, 2009·International Journal of Molecular Medicine·Young-Rae LeeJong-Suk Kim
Feb 17, 2010·Database : the Journal of Biological Databases and Curation·Rezarta Islamaj DoganZhiyong Lu
Jan 20, 2011·Database : the Journal of Biological Databases and Curation·Zhiyong Lu
May 15, 2013·Journal of the American Medical Informatics Association : JAMIA·Ryen W White, Eric Horvitz
Sep 16, 2017·Journal of Food and Drug Analysis·Majid Hashemi
Oct 31, 2017·ELife·Nicolas FioriniZhiyong Lu

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Citations

Aug 29, 2018·PLoS Biology·Nicolas FioriniZhiyong Lu

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