Literature DB >> 30272675

How user intelligence is improving PubMed.

Nicolas Fiorini1, Robert Leaman1, David J Lipman1, Zhiyong Lu1.   

Abstract

PubMed is a widely used search engine for biomedical literature. It is developed and maintained by the US National Library of Medicine/National Center for Biotechnology Information and is visited daily by millions of users around the world. For decades, PubMed has used advanced artificial intelligence technologies that extract patterns of collective user activity, such as machine learning and natural language processing, to inform the algorithmic changes that ultimately improve a user's search experience. Although these efforts have led to objective improvements in search quality, the technical underpinnings remain largely invisible and go largely unnoticed by most users. Here we describe how these 'under-the-hood' techniques work within PubMed and report how their effectiveness and usage is assessed in real-world scenarios. In doing so, we hope to increase the transparency of the PubMed system and enable users to make more effective use of the search engine. We also identify open challenges and new opportunities for computational researchers to explore the potential of future improvements.

Year:  2018        PMID: 30272675     DOI: 10.1038/nbt.4267

Source DB:  PubMed          Journal:  Nat Biotechnol        ISSN: 1087-0156            Impact factor:   54.908


  24 in total

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Authors:  F M Campbell
Journal:  Bull Med Libr Assoc       Date:  1990-10

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Authors:  Chung-Chi Huang; Zhiyong Lu
Journal:  Database (Oxford)       Date:  2016-03-25       Impact factor: 3.451

5.  AskHERMES: An online question answering system for complex clinical questions.

Authors:  YongGang Cao; Feifan Liu; Pippa Simpson; Lamont Antieau; Andrew Bennett; James J Cimino; John Ely; Hong Yu
Journal:  J Biomed Inform       Date:  2011-01-21       Impact factor: 6.317

Review 6.  Levalbuterol versus albuterol for acute asthma: a systematic review and meta-analysis.

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Journal:  Pulm Pharmacol Ther       Date:  2012-11-30       Impact factor: 3.410

Review 7.  PubMed and beyond: a survey of web tools for searching biomedical literature.

Authors:  Zhiyong Lu
Journal:  Database (Oxford)       Date:  2011-01-18       Impact factor: 3.451

8.  Understanding PubMed user search behavior through log analysis.

Authors:  Rezarta Islamaj Dogan; G Craig Murray; Aurélie Névéol; Zhiyong Lu
Journal:  Database (Oxford)       Date:  2009-11-27       Impact factor: 3.451

9.  PubMed Labs: an experimental system for improving biomedical literature search.

Authors:  Nicolas Fiorini; Kathi Canese; Rostyslav Bryzgunov; Ievgeniia Radetska; Asta Gindulyte; Martin Latterner; Vadim Miller; Maxim Osipov; Michael Kholodov; Grisha Starchenko; Evgeny Kireev; Zhiyong Lu
Journal:  Database (Oxford)       Date:  2018-01-01       Impact factor: 3.451

10.  Expert Search Strategies: The Information Retrieval Practices of Healthcare Information Professionals.

Authors:  Tony Russell-Rose; Jon Chamberlain
Journal:  JMIR Med Inform       Date:  2017-10-02
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  12 in total

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Authors:  Michael Tran Duong; Andreas M Rauschecker; Jeffrey D Rudie; Po-Hao Chen; Tessa S Cook; R Nick Bryan; Suyash Mohan
Journal:  Br J Radiol       Date:  2019-07-26       Impact factor: 3.039

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Authors:  Alexis Allot; Qingyu Chen; Sun Kim; Roberto Vera Alvarez; Donald C Comeau; W John Wilbur; Zhiyong Lu
Journal:  Nucleic Acids Res       Date:  2019-07-02       Impact factor: 16.971

3.  BERT-GT: Cross-sentence n-ary relation extraction with BERT and graph transformer.

Authors:  Po-Ting Lai; Zhiyong Lu
Journal:  Bioinformatics       Date:  2021-01-08       Impact factor: 6.937

4.  LitSuggest: a web-based system for literature recommendation and curation using machine learning.

Authors:  Alexis Allot; Kyubum Lee; Qingyu Chen; Ling Luo; Zhiyong Lu
Journal:  Nucleic Acids Res       Date:  2021-07-02       Impact factor: 16.971

5.  Exploring semi-supervised variational autoencoders for biomedical relation extraction.

Authors:  Yijia Zhang; Zhiyong Lu
Journal:  Methods       Date:  2019-02-27       Impact factor: 3.608

6.  RadBERT: Adapting Transformer-based Language Models to Radiology.

Authors:  An Yan; Julian McAuley; Xing Lu; Jiang Du; Eric Y Chang; Amilcare Gentili; Chun-Nan Hsu
Journal:  Radiol Artif Intell       Date:  2022-06-15

7.  Towards a unified search: Improving PubMed retrieval with full text.

Authors:  Won Kim; Lana Yeganova; Donald C Comeau; W John Wilbur; Zhiyong Lu
Journal:  J Biomed Inform       Date:  2022-09-21       Impact factor: 8.000

8.  Large expert-curated database for benchmarking document similarity detection in biomedical literature search.

Authors:  Peter Brown; Yaoqi Zhou
Journal:  Database (Oxford)       Date:  2019-01-01       Impact factor: 3.451

9.  VIST - a Variant-Information Search Tool for precision oncology.

Authors:  Jurica Ševa; David Luis Wiegandt; Julian Götze; Mario Lamping; Damian Rieke; Reinhold Schäfer; Patrick Jähnichen; Madeleine Kittner; Steffen Pallarz; Johannes Starlinger; Ulrich Keilholz; Ulf Leser
Journal:  BMC Bioinformatics       Date:  2019-08-16       Impact factor: 3.169

10.  Deep learning with sentence embeddings pre-trained on biomedical corpora improves the performance of finding similar sentences in electronic medical records.

Authors:  Qingyu Chen; Jingcheng Du; Sun Kim; W John Wilbur; Zhiyong Lu
Journal:  BMC Med Inform Decis Mak       Date:  2020-04-30       Impact factor: 2.796

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