Integration with online services

From refbase

This page describes how to use refbase with bibliographic databases such as PubMed, ISI Web of Science, or publisher-specific database services:

Contents

Getting records from bibliographic databases into refbase

Note that some bibliographic databases such as ISI Web of Science (ISI WoS), CSA Illumina or ScienceDirect grant access based on your IP address, and that your university or institution must have a subscription to these services.

The instructions below describe how to export multiple records from common bibliographic databases. For all described databases, it's also possible to export individual records from their abstract/details pages in a very similar fashion.

Exporting from PubMed

Records from PubMed can be imported directly from the refbase import form (import.php) via their PubMed ID. Alternativly, you can perform the following steps to get results from PubMed into refbase:

  • Perform a search on the PubMed web site.
  • Click the checkboxes next to all found results that you'd like to import into refbase.
  • Choose "MEDLINE" (or "XML") from the "Display" dropdown menu.
  • Choose "File" from the "Send to" dropdown menu. This will save a text file (named "pubmed-result.txt") to your computer.
  • Go to the refbase import form and select your saved text file via the file upload button. Then click the "Import" button.

Exporting from ISI Web of Science

Perform following steps to get results from ISI WoS into refbase:

  • Perform a search on the ISI WoS portal.
  • Click the checkboxes next to all found results that you'd like to import into refbase.
  • In the box at the right of the results page, under "Output Records", select "Full Record" from the dropdown menu. Then click the "Save" button.
  • On the upcoming page, make sure that "Field Tagged (plain text)" is selected, then click the "Continue" button. This will save a text file (named "savedrecs.txt") to your computer.
  • Go to the refbase import form and select your saved text file via the file upload button. Then click the "Import" button.

Exporting from CSA Illumina

Perform following steps to get results from CSA Illumina into refbase:

  • Perform a search on the CSA Illumina portal.
  • Click the checkboxes next to all found results that you'd like to import into refbase.
  • Click on the "Save, Print, Email" link that's displayed above the search results list.
  • On the upcoming page, make sure that "Full format" is selected in the upper dropdown menu, then click the "Save" button on the lower half of the page. This will save a text file (named "csaresults.txt") to your computer.
  • Open the saved text file in a text editor, and copy everything starting from (and including) the line "Record 1 of xx", i.e. you must omit the CSA file header when copying! (more info)
  • Paste the copied data into the refbase import form and click the "Import" button.

Exporting from ScienceDirect

Perform following steps to get results from ScienceDirect into refbase:

  • Perform a search on the ScienceDirect portal.
  • Click the checkboxes next to all found results that you'd like to import into refbase.
  • Click on the "export citations" button that's displayed above the search results list. (Note that this button is only available if your university or institution has sufficient access permissions.)
  • On the upcoming page, select "Citations and Abstracts" as content format, and "RIS format (for Reference Manager, ProCite, EndNote)" as export format. Then click the "Export" button. This will save a text file (named "science.ris") to your computer.
  • Go to the refbase import form and select your saved text file via the file upload button. Then click the "Import" button.

Exporting from Google Scholar

Perform following steps to get results from Google Scholar into refbase:

  • To enable export of references from Google Scholar, do this once:
    • Goto your Google Scholar preferences.
    • At the bottom of the preferences page, in the "Bibliography Manager" section, click on the radio button next to "Show links to import citations into".
    • From the dropdown menu, select "RefMan" (the options "BibTeX" and "EndNote" would also work if Bibutils has been installed and enabled for refbase).
  • Perform a search on the Google Scholar web site.
  • Click the "Import into RefMan" link next to a reference that you'd like to import into refbase. This will save a text file (named "scholar.ris") to your computer.
  • Go to the refbase import form and select your saved text file via the file upload button. Then click the "Import" button.