How to Import References from My NCBI’s My Bibliography into an EndNote Library??

December 18, 2013 – Yingting

Most of us have already known how to import references from PubMed search results into EndNote. What if you want to import the references that have already been saved into your My Bibliography in My NCBI? Below are the steps that you may follow to do so:

  • Log into My NCBI at the upper right corner at http://pubmed.gov.
  • Click on My NCBI at the upper right corner after login.
  • Click on “Manage My Bibliography »” at the bottom of the My Bibliography box.
  • Select All or just the desired references by clicking in the boxes next to the references.
  • Then click on the “Download as text” button.
  • In the “Opening medline.txt” popup window, choose “Save File” and then click OK. Note: remember where you saved the txt file.
  • Launch EndNote program
  • Under the File menu, go to Import –> File… .
  • When the Import File popup window appears, browse to choose the medline.txt file that you just saved.
  • Make sure in the box next to Import Option is PubMed (NLM).
  • You may import all or discard the duplicates. I usually choose Import All and do the deduplicaiton later.
  • Leave No Translation in the box, then click the Import button, your references should be imported into your EndNote library.

Importing References from UMDNJ Databases

June 8. 2012 – Yingting

As providers changed their database interfaces, the instructions I previously wrote were out of date. Clicking this link http://www.umdnj.edu/rwjlbweb/enx5import.pdf to view the updated instructions in PDF on how to import references from some of the databases heavily used by our UMDNJ users into EndNote X5. Should you have any problem importing references, please contact your campus librarians for help.

PubMed “Connection File” alert, Updated file for EndNote X4.0.2

March 23, 2011

The PubMed connection file that shipped with EndNote X4.0.2 for both Windows and Mac uses the full journal name rather than the abbreviated journal name in the Journal field. Our Medline terms list uses the abbreviated journal name, so you will likely want to replace your X4.0.2 PubMed connection file with this copy in order to properly substitute journal names with the terms list. This only applies to EndNote X4.0.2, other versions are not impacted. To properly install this new connection file:

  1. Download the connection file from the link above and save it somewhere easy to find, such as your Desktop.
  2. Double-click on the downloaded file to open it in the EndNote software.
  3. Click the File menu in EndNote and select Save As.
  4. IMPORTANT: Make sure that the name shows here as PubMed (NLM). You may need to remove the word “Copy” to get it to show exactly correctly. Then, click Save.
  5. The correct connection file is now installed in EndNote. You can delete the copy that you downloaded.



Importing References from PubMed into EndNote X4.0.2 for Windows Using Different Browsers

March 4, 2011 – Yingting Zhang            

Importing References from PubMed into EndNote X4.0.2 for Windows Using Different Browsers

Using Firefox

  1. Do a search in the new PubMed.
  2. Select the references you would like to export.
  3. At the upper right corner of the screen, click Send to or the arrow next to it.
  4. Under Choose Destination, click the radio button next to File
  5. Under Format, choose MEDLINE.
  6. Then click on the Create File button.
  7. In the Opening pubmed_result.txt pop-up window, in the Open with box, choose ResearchSoft Direct Export Helper if it is available (if not, choose EndNote). then click on OK.
  8. If the Choose An Import Filter pop-up window appears, choose PubMed (NLM) if it is not highlighted yet. Then click on the Choose button.
  9. Your references will be imported into your EndNote library.

Using Internet Explorer (IE)

  1. Do a search in the new PubMed.
  2. Select the references you would like to export.
  3. At the upper right corner of the screen, click Send to or the arrow next to it.
  4. Under Choose Destination, click the radio button next to File
  5. Under Format, choose MEDLINE.
  6. Then click on the Create File button.
  7. A pop-up window will appear. Click Save to save it as a txt file.
  8. In EndNote X4.0.2, open the library in which the saved file will be imported.
  9. Under the File menu, choose Import… to launch the Import pop-up window.
  10. Choose the txt file you just saved in the box next to Import Data File; then choose PubMed (NLM) as Import Option; you may either import all or discard the duplicates.
  11. In the Text Translation box, leave it to “No Translation”
  12. Click the Import button; your references will be imported into your EndNote library.

Using Chrome

  1. Do a search in the new PubMed.
  2. Select the references you would like to export.
  3. At the upper right corner of the screen, click Send to or the arrow next to it.
  4. Under Choose Destination, click the radio button next to File
  5. Under Format, choose MEDLINE.
  6. Then click on the Create File button. The pubmed_result.txt file will be created and downloaded into My Documents\Downloads. (Note: the pubmed_result.txt file may be numbered based on how many files you have downloaded.  So it is important to remember the file name.)
  7. In EndNote X4.0.2, open the library in which the saved file will be imported.
  8. Under the File menu, choose Import  à File  to launch the Import File pop-up window.
  9. Choose the txt file from the Downloads folder for the box next to Import File; then choose PubMed (NLM) as Import Option; you may either import all or discard the duplicates.
  10. In the Text Translation box, leave it to “No Translation”
  11. Click the Import button; your references will be imported into your EndNote library.

Note: Although Chrome works fine to import references from PubMed into EndNote, I do not recommend using Chrome to import references from Medline via OvidSP, because the journal, volume, issue information is not imported properly. Instead of being placed into the proper fields, the information is placed into the Notes field. Chrome cannot import references from Google Scholar either. It imports only the Author(s), Year, and Title fields.

Importing References from UMDNJ Databases

January 6, 2010 – Yingting    

Clicking on this link http://www.umdnj.edu/rwjlbweb/enx3import.pdf will take you to a PDF file with instructions on how to import references from some of the databases heavily used by our UMDNJ users into EndNote X3. Should you have any problem importing references, please your campus librarians for help.

How to import references from the new PubMed interface into EndNote X3?

October 29, 2009 – Yingting  

The PubMed interface has been changed. The old way of exporting references from PubMed is no longer valid. Here are the steps to export references from the new PubMed:

  • Do a search in the new PubMed.
  • Select the references you would like to export.
  • At the upper right corner of the screen, click Send to or the down arrow next to it.
  • Under Choose Destination, click the radio button next to File
  • Under Format, choose MEDLINE.
  • Then click on the Create File button.
  • A pop-up window will appear. Click Save to save it as a txt file.
  • In EndNote X3, open the library in which the saved file will be imported.
  • Under the File menu, choose Import… to launch the Import pop-up window.
  • Choose the txt file just saved for the box next to Import Data File; then choose PubMed (NLM) as Import Option; you may either import all or discard the duplicates.
  • In the Text Translation box, leave it to “No Translation”
  • Click the Import button; your references will be imported into your chosen library.

How to Import References from PubMed into an EndNote Library

September 4, 2008 – Yingting

 

References from PubMed can be stored and managed in EndNote by using the “Import” function, as shown below:  

  1. Conduct a search in PubMed.
  2. Select the references you want to keep by clicking in the checkboxes next to them.
  3. Make sure MEDLINE was chosen in the Display box in the upper right corner of the screen. The default display is usually in “Summary” form, showing citations without abstracts. From the pull-down menu select “MEDLINE”. This will change the display format of the references to be tagged in the manner needed for EndNote to correctly import the references.
  4. In the “Sent to” pull-down menu, choose “File”. A File Dowlnload window will pop up.
  5. Click on the Save button in the pop-up window and then save the references as a text file. The default name for the file is “pubmed_result”, but you can change it to your own choice. Then click on the Close button of the pop-up window.
  6. Start EndNote.
  7. Open the library or create a new library into which you want to import the records.
  8. From the File menu of EndNote, select Import. An “Import” window will appear.
  9. Click on “Choose File…” and slect the .txt file that was saved from PubMed. 
  10. In the Import Option pull-down menu, choose “PubMed (NLM)” as the import filter. This tells EndNote how the data in the .txt file was organized so that the appropriate information can be filtered into the EndNote library. 
  11. When importing into an existing library, decide what to do with duplicates from the options provided in the “Duplicates” drop-down list. 
  12. In the “Text Translation” field, keep “no translation”.
  13. Press the “Import” button.
  14. The references will be placed into your chosen library.