JabRef
v4
v4
  • JabRef Bibliography Management
  • General information about JabRef
    • Entry Editor
    • Best Practices
    • Command line use and options
    • Automatic Backup (.sav and .bak) and Autosave
    • Remote operation
    • Installation
  • About BibTeX and its fields
    • URL and DOI links in JabRef
    • File links in JabRef
    • Links to other entries
    • The 'owner' field
    • Time stamped fileds
    • Journal abbreviations
    • Special Fields
    • Set/clear/rename fields
    • Field content selector
    • Strings
  • Finding, Sorting, and Cleaning Entries
    • Searching within the library
    • Searching externally using Online Services
      • ACM Portal
      • arXiv
      • CiteSeerX
      • DBLP
      • DOAJ
      • Google Scholar
      • GVK
      • IEEEXplore
      • INSPIRE-HEP
      • MathSciNet
      • MEDLINE
      • SAO/NASA Astrophysics Data System
      • Springer
      • Unpaywall
      • zbMATH
    • Searching externally using Publication Identifiers
      • DiVA
      • DOI -- Digital Object Identifier
      • IACR eprint IDs
      • ISBN number
      • Medline
      • RFC document
      • SAO/NASA Astrophysics Data System
      • Title of the paper
    • Add unlinked PDFs including BibTeX data into the database
    • Synchronize file links
    • Cleanup entries
    • Save actions
    • Check integrity
    • Get BibTeX data from DOI
    • Find duplicates
    • Merge entries
    • Groups
    • Replace string
  • Import and Export
    • Import
      • JabRef Browser Extension
      • Custom import filters
      • Import from Microsoft Word -- MS Office Bibliography XML format
      • Import inspection window
      • New subdatabase based on AUX file
      • New entry from plain text
    • Export
      • Custom export filters
      • EndNote Export Filter
      • Export to an External SQL Database
      • Export to Microsoft Word -- MS Office Bibliography XML format
    • Other integrations
      • LaTeX Citations Tab
      • OpenOffice/LibreOffice integration
      • Pushing to external editor application
      • XMP metadata support in JabRef
    • Knowledge
      • Comparison of the Medline (txt), Medline (XML), and RIS format
  • Collaborative Work
    • Sharing a Bib(La)TeX Database
    • Shared SQL Database
    • Migration of pre-3.6 SQL databases into a shared SQL database
  • Configuration of JabRef
    • Customize the BibTeX key generator
    • Customize entry types
    • Customize general fields
    • Customize key bindings
    • Database properties window
    • Entry preview setup
    • Manage external file types
    • Manage protected terms
    • The string editor
  • Frequently Asked Questions and Howtos
    • General FAQs
    • Contributing
    • Sharing
    • How Tos
      • How to expand first names of a BibTeX entry
      • How to Improve the Help Page
      • How to translate the JabRef User Interface
    • FAQs on Operating Systems
      • Linux
      • Mac OS X
      • Windows
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  • Using a Proxy Server
  • Mass downloading of articles

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  1. Finding, Sorting, and Cleaning Entries
  2. Searching externally using Online Services

MEDLINE

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Last updated 3 years ago

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is a bibliographic database of life sciences and biomedical information. It includes bibliographic information for articles from academic journals covering medicine, nursing, pharmacy, dentistry, veterinary medicine, and health care. MEDLINE also covers much of the literature in biology and biochemistry, as well as fields such as molecular evolution ().

To fetch entries from MEDLINE, choose Search → Web search, and the search interface will appear in the side pane. Select MEDLINE in the dropdown menu. To start a search, enter the words of your query, and press Enter or the Fetch button.

There are two ways of specifying which entries to download:

  1. Enter one or more MEDLINE IDs (separated by comma/semicolon) in the text field.

  2. Enter a set of names and/or words to search for. You can use the operators and and or and parentheses to refine your search expression. See for full description.

    Examples:

    • May \[au\] AND Anderson \[au\]

    • Anderson RM \[au\] HIV \[ti\]

    • Valleron \[au\] 1988:2000\[dp\] HIV \[ti\]

    • Valleron \[au\] AND 1987:2000\[dp\] AND (AIDS \[ti\] OR HIV\[ti\])

    • Anderson \[au\] AND Nature \[ta\]

    • Population \[ta\]

In both cases, press Enter or the Fetch button. If you use a text search, you will be prompted with the number of entries found, and given a choice of how many to download.

Then, the results are displayed in the . In case an error occurs, it is shown in a popup.

Using a Proxy Server

If you need to use an HTTP proxy server, you can configure JabRef to use a proxy using the "Network" preferences (Options → Preferences → Network).

Mass downloading of articles

JabRef is not intended to be a tool for mass download of citations. The purpose of the WebFetchers (such as the Medline Fetcher) is to simplify download of single, or at least few entries without using the browser. That means, one tries to import the bibliographic information of already known publications in a simple way.

However, it is still possible to import hundreds or even thousands of entries from medline using the export functionality of the database itself. Perfom the search query you like, and then choose the "Send to" → "File" export (choose Medline or XML as format):

The downloaded file can then be imported using JabRefs "File" → "Import into current/new database" feature. Note: depending on the number the import might require some - or quite a lot of time. It was tried in 2016 with an exported XML file of 130MB an over 11000 found entries, which required more than 10 minutes of import.

medline-export

Apart from fetching entries by using a full search it is also possible to directly create a BibTeX entry using the BibTeX → New Entry dialog. More details are described at .

MEDLINE
Wikipedia
OVID operators
import inspection window
Medline-to-BibTeX