EndNote: PubMed Auto Export

 

 

Automatic export of PubMed references can be done using Internet Explorer (IE) or Mozilla Firefox browsers. Both browsers are available for Windows/Vista and Macintosh platforms. IE is the default Internet browser for Microsoft (http://www.microsoft.com/windows/Internet-explorer/default.aspx). Mozilla Firefox, reputed more secure than IE, is widely used on both Windows/Vista and Macintosh platforms. Since Firefox versions 3.0 and above are already configured for automatic export. Note that these instructions apply to EndNote X2/X3 only.

 

The key to this automatic export process is in the browser setup. IE 7/8 require an adjustment to their default settings. The necessary adjustment is unavailable in older versions of IE.  

 

To configure IE for PubMed auto export to EndNote. To configure IE version 7:

 

·         Open IE 7

·         Click Tools

·         Click Internet Options

·         Select the Program Tab

·         On the lower right side click Set Program

·         Select “Associate a file type or protocol with a program” See Figure 1

·         Select .txt

·         Click Change Program

·         Select EndNote

·         Click OK, and EndNote should open.

·         Select the EndNote Library wanted

·         Highlight PubMed as the Import Filter, and click Choose

 

 

For those using IE 8, the settings are somewhat different.

 

·         Locate any text file (.txt) file on the computer, or create a brief test file (.txt)

·         Right click on txt file icon

·         Select Open With

·         Go to Choose Program

·         Highlight EndNote

·         Check box (Always use selected program to open file)

·         Click on Okay

·         Now any text file will be opened by EndNote

 

Note: if Notepad is needed, reverse the steps to make Notepad the default to open text files. If Notepad is used regularly for other applications, this option is not recommended.

 

If the user has administrative rights to the computer, there is another method of using IE8 in XP:

 

·         Go to Start

·         Choose Control Panel                                                                   

·         Choose Folder Options

·         Select File Types tab                                                                                                      

·         Under Registered File Types scroll down and choose txt

·         Choose Advanced at the bottom of the page

·         In Edit File Type menu choose Open and then Edit

·         Under Application Used to Perform Action, browse to Programs Folder on hard drive

·         Find the EndNote folder and choose EndNote.exe

·         (It will look something like this… “C:\Program Files\EndNote X2\EndNote.exe” )

·         Click Okay

 

In PubMed do the following:

 

·         Select references

·         Click Send To

·         Choose Destination File

·         Change the Format to MEDLINE

·         Click Create File

·         Choose Open

·         When EndNote opens, choose the PubMed filter

 

If the user has administrative rights to the computer, there is another method of using IE8 in Vista:

 

·         Go to Start

·         Choose Default Programs

·         Choose “Associate a file type or protocol with a program”

·         Highlight txt in the menu window

·         Click Change Program

·         Choose EndNote

·         Click Okay

 

For more assistance contact IUSM librarians Sue London slondon@iupui.edu , Carole Gall cfgall@iupui.edu or Director of Educational Technology, Osman Gurdal ogurdal@iupui.edu .

Donna Kirking, EndNote Senior Product Trainer with ISI Thompson, will offer a no-charge training demonstration on EndNote X2 at the IUSM Riley Hospital ROC Conference Room A on Tuesday, March 24, 2009.

Ms Kirking will include two 1.5-hour presentations, the first between 8:30-10:00 AM on EndNote and the second between 10:00-11:30 AM on using EndNote with MS Word 2007.

Faculty, staff and students of IUSM are welcomed at either or both morning sessions. An option is the repeat session that afternoon at the IUPUI University Library Auditorium between 1:00-4:00 PM.

For more information contact Medical Librarian, Carole Gall, 317 274-1411, cfgall@iupui.edu .

Let EndNote X2 locate and download full text for you—no additional steps required!  Select one or more references, a Group, or your entire Library and have EndNote scan for full text available to you including IU School of Medicine Libraries’ online archives and subscriptions.  When the full text is found, EndNote downloads and links it to the appropriate reference automatically—all while you continue to work.

One prerequisite is needed, in EndNote X2 click Edit (on a Macintosh computer click EndNote X2), Preferences, URLs & Links, and check Enable Open URL.  In the Open URL Path, paste http://rx8kl6yf4x.search.serialssolutions.com/ and click Ok.

For more information contact the IU School of Medicine Librarian, Carole Gall at 317 274-1411 cfgall@iupui.edu or EndNote Specialist Doug Bartlow at 317 274-5077 jbartlo@iupui.edu

NIH Requires PubMed Central ID and the EndNote Enhancement

As you may know, articles in PubMed Central have their own identifier, the PMCID.  NIH funded authors are required to include the PMCID on reports and grant-related documents.

There is now a converter which allows one to retrieve the PMID with the PMCID, or the reverse, for one or a batch of identifiers.  The converter is located at: http://www.ncbi.nlm.nih.gov/sites/pmctopmid .

EndNote citation management has updates for transferring the PMCID number into EndNote references and displaying the PMCID in the EndNote NIH reference style. At the endnote.com web site it states, “When submitting a grant to the NIH, they require that the PMC number be included for all references. Updated content files can be found in this FAQ.”

Here is an example of the new look in the EndNote NIH style is:

1. Heaney ML, Pierce J, Parsons JT. Site-directed mutagenesis of the gag-myc gene of avian myelocytomatosis virus 29: biological activity and intracellular localization of structurally altered proteins. J Virol. 1986;60(1):167-76. PMCID: PMC253914

For questions or problems please contact the IUSM Libraries for Carole Gall, cfgall@iupui.edu 317 274-1411 or Doug Bartlow jbartlo@iupui.edu 317 274-5077.

June 25 - Wednesday 2:30-4:30
July 15 - Tuesday 9-11
Aug 13 - Wednesday 9-11
Sept 18 - Thursday 2:30-4:30
Oct 23 - Thursday 9-11
Nov 12 - Wednesday 9-11 - Cancelled
Dec 9 - Tuesday 2:30-4:30

This workshop is for those with familiarity with EndNote. After building a practice EndNote library and learning some new features of EndNote X1, the workshop focus is on customizing styles for citations and references, understanding how EndNote changes journal titles between full and abbreviated, cleaning up author names in EndNote libraries, saving a .jpg image into EndNote and inserting it into a MS Word document, creating a standalone bibliography that can be saved in html format for web pages, searching for references in a large EndNote library, and plenty of time for Q&A. Workshops for 2008 are all in MS 016A.

IUSM Libraries instructors are Carole Gall and Doug Bartlow. For questions, suggestions of topics to cover, and to register, please contact Carole Gall, 274-1411 cfgall@iupui.edu .

Getting Started with EndNote

Learn citation management and the new EndNote features (subgroups in Libraries, pdf attachments, etc.) and the new look of MS Word 2007 Cite-While-You-Write.

• February 19 - Tuesday 10:00-11:30 am MS B016
• February 27 - Wednesday 5:00-6:30 pm IB 318
• March 17 - Monday 2:30-4:00 pm MS B016
• April 16 - Wednesday 2:30-4:00 pm MS B016
• May 9 - Friday 10:00-11:30 am MS B016
• June 10 - Tuesday 11:30 am - 1:00 pm IB 318
• June 24 - Tuesday 11:30 am - 1:00 pm IB 318
• July 16 - Wednesday 11:30 am-1:00 pm IB 318
• August 26 - Tuesday 12 Noon-1:30 pm IB 318
• September 12 - Friday 10:00-11:30 am & 1-2:30 pm, MS B016
• October 21 - Tuesday 2:30-4:00 pm MS B016
• November 11 - Tuesday 10:00-11:30 am MS B016
• December 17 - Wednesday 2:30-4:00 pm MS B016

For more information, set up a special workshop for your unit, or to register, please contact IUSM Librarian, Carole Gall, cfgall@iupui.edu 274-1411.