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CSIRO at 2019 TREC Precision Medicine Track.
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This article is published in Text REtrieval Conference.The article was published on 2019-01-01 and is currently open access. It has received 5 citations till now. The article focuses on the topics: Track (disk drive).read more
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Journal ArticleDOI
Clinical trial search: Using biomedical language understanding models for re-ranking.
TL;DR: An evaluation on the TREC Precision Medicine benchmarks indicates that the approach using the BERT model pre-trained on scientific abstracts and clinical notes achieves state-of-the-art results, on par with highly specialised, manually optimised heuristic models.
Journal ArticleDOI
A2A: a platform for research in biomedical literature search
TL;DR: The A2A search and benchmarking tool as mentioned in this paper is a public online tool for searching over biomedical literature, guided by the NIST setup of the relevant TREC evaluation tasks in genomics, clinical decision support, and precision medicine.
Book ChapterDOI
Designing a Novel Framework for Precision Medicine Information Retrieval
TL;DR: This study investigates the application of the latest information retrieval and text mining techniques to PMIR and proposes three promising techniques: keyphrase extraction for indexing, hybrid query expansion including word embeddings, and retrieval results re-ranking with supervised regression analysis for PMIR.
Book ChapterDOI
A Deep Analysis of an Explainable Retrieval Model for Precision Medicine Literature Search
TL;DR: In this article, a simple, explainable re-ranking model that follows the structured search criterion is proposed to predict different aspects of the criterion by machine learning classifiers, which are then combined through the logical form to predict document relevance.
Journal ArticleDOI
An improved BM25 algorithm for clinical decision support in Precision Medicine based on co-word analysis and Cuckoo Search.
TL;DR: In this paper, an improved version of the BM25 algorithm was proposed, which computes the scores of expanded words and co-word leading to a composite retrieval function, which is then optimized using the Cuckoo Search.
References
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Journal ArticleDOI
What is precision medicine
TL;DR: This paper is to provide a more comprehensive definition of precision medicine that incorporates the derivation of novel taxonomies and their role in healthcare as part of the cycle, but also covers related terms.
Proceedings Article
Overview of the TREC 2015 Clinical Decision Support Track.
TL;DR: The focus of the 2014 track was the retrieval of biomedical articles relevant for answering generic clinical questions about medical records, using short case reports, such as those published in biomedical articles, as idealized representations of actual medical records.
Journal ArticleDOI
MetaMap Lite: an evaluation of a new Java implementation of MetaMap
TL;DR: This study presents MetaMap Lite, an implementation of some of the basic MetaMap functions in Java that demonstrated real-time speed and precision, recall, and F1 scores comparable to or exceeding those of MetaMap and other popular biomedical text processing tools, clinical Text Analysis and Knowledge Extraction System (cTAKES) and DNorm.
Proceedings Article
Overview of the TREC 2018 Precision Medicine Track.
Kirk Roberts,Dina Demner-Fushman,Ellen M. Voorhees,William R. Hersh,Steven Bedrick,Alexander J. Lazar +5 more
TL;DR: The TREC Precision Medicine track was launched to specialize the CDS track to the needs of precision medicine so IR systems can focus on this important issue, and for three years the TREC Clinical Decision Support track sought to evaluate IR systems that provide medical evidence at the point ofcare.
Proceedings Article
Overview of the TREC 2016 Clinical Decision Support Track.
TL;DR: The Clinical Decision Support Track (CDST) as discussed by the authors was the first track to address the problem of finding the most relevant and timely information for a particular clinical need, which can be a daunting and time-consuming task.