Visualizing PubMed: Displaying Search Results by Topic, Region and Time

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Visualizing PubMed: Displaying Search Results by Topic, Region and Time

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Title: Visualizing PubMed: Displaying Search Results by Topic, Region and Time
Author: Sperr, Edwin
Abstract: Objectives: This project is an attempt to visualize the results of PubMed searches in a variety of different ways: topics and how they overlap with Venn diagrams, aspects of a search (MeSH categories and subheadings) with bar graphs, geographic areas by choropleth, and how results change by year using a line graph. Methods: Using the NCBI API (E-utilities), a series of tools have been developed to visualize PubMed searches. Querying of the API and parsing of the results is done in the browser via JavaScript/jQuery. Visualization of results is also done in the browser (for the most part with Google Charts and with the venn.js overlay of d3.js for Venn diagrams). Results: The applications successfully display a visualization of the aggregate results of an individual search and facilitate the easy comparison of that search with others. The applications and their source code can be found at https://github.com/esperr. Conclusion: Visualizing the results of a search in aggregate is a potentially useful way for experienced searchers to refine their search strategies. Viewing PubMed in this way is also an interesting exercise for those who utilize bibliometric analysis of the biomedical literature. Finally, these applications are intended as examples of how relatively simple programing can stitch together APIs and libraries to create new interfaces to our databases.
Description: Audio (and video of slides) from a talk presented at the 117th Annual Meeting and Exhibition of the Medical Library Association in Seattle Washington on May 30th, 2017
URI: http://hdl.handle.net/10724/36987
Date: 2017-06-15


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pubmedviz_mla.mp4 72.61Mb MPEG video View/Open
mla_script.pdf 201.0Kb PDF View/Open

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