A content-based literature recommendation system for datasets to improve data reusability - A case study on Gene Expression Omnibus (GEO) datasets.

Journal of Biomedical Informatics
Braja Gopal PatraHulin Wu

Abstract

The centrality of data to biomedical research is difficult to understate, and the same is true for the importance of the biomedical literature in disseminating empirical findings to scientific questions made on such data. But the connections between the literature and related datasets are often weak, hampering the ability of scientists to easily move between existing datasets and existing findings to derive new scientific hypotheses. This work aims to recommend relevant literature articles for datasets with the ultimate goal of increasing the productivity of researchers. Our approach to literature recommendation for datasets is a part of the dataset reusability platform developed at the University Texas Health Science Center at Houston for datasets related to gene expression. This platform incorporates datasets from Gene Expression Omnibus (GEO). An average of 34 datasets were added to GEO daily in the last five years (i.e. 2014 to 2018), demonstrating the need for automatic methods to connect these datasets with relevant literature. The relevant literature for a given dataset may describe that dataset, provide a scientific finding based on that dataset, or even describe prior and related work to the dataset's topic that is of ...Continue Reading

References

Nov 1, 2007·BMC Bioinformatics·Jimmy Lin, W John Wilbur
Mar 16, 2016·Scientific Data·Mark D WilkinsonBarend Mons
Jan 29, 2017·Journal of the American Medical Informatics Association : JAMIA·Dina Demner-FushmanAlan R Aronson
Jun 7, 2017·Scientific Data·Susanna-Assunta SansoneLucila Ohno-Machado
Oct 6, 2017·PloS One·Khalid HarunaTutut Herawan
Jan 19, 2018·Journal of the American Medical Informatics Association : JAMIA·Xiaoling ChenHua Xu
Apr 25, 2018·Database : the Journal of Biological Databases and Curation·Zhao LiPeng Yu

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Citations

Oct 2, 2020·Database : the Journal of Biological Databases and Curation·Braja Gopal PatraHulin Wu
Nov 29, 2020·Database : the Journal of Biological Databases and Curation·Braja Gopal PatraAshraf Yaseen

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