New PubMed: Exporting Citations into EndNote

When saving citations in PubMed for importing into EndNote there are two ways to do so:

  1. Use the Display Results link and limit your download (using File Save As from your browser) to 200 citations.
  2. Use the Send To link > Click Send To > Select File > Click Format dropdown and change to MEDLINE > Click Create File Button and you will be allowed to save more than 200 citations in the MEDLINE format used by EndNote.

Note: The EndNote PubMed filter was changed in November 2009! You need to update your EndNote filter!

  • Go to:
  • Click the Filtering Options Tab
  • Change "Filter by" to NLM and click the Filter Files Button
  • Download & save the PubMed filter to: C:\Program Files\EndNote X?\Filters
    [EndNote X?=whatever version you have]
    (Mac users save in EndNote application folder in the Filters folder.
  • If it asks do you want to replace one already in the folder ... YES

Not using X3 yet? Read on about the 2010 Bug
There is a bug when downloading citations from PubMed for EndNote versions prior to X3. The year 2010 will not be imported with the record unless you are using X3. The PubMed record will download but the year field will be blank.

A patch for X2 is available here: A Patch for X1 and earlier is being worked on. To register to receive notification when the patch is available click here:

Here's how to edit imported records where this has occurred:

  • You can manually edit individual records
  • You can do a batch edit of selected records. To do this: highlight articles w/o years (which you KNOW to be 2010 then Right Click > Choose Show Selected > Choose Show Selected > Click References > Click Change and Move Fields > Change dropdown to Year > Click Replace Whole Field with > Type in 2010 > Click OK


Have more EndNote questions? We're happy to help!