Levy Library

Improved Citation Export to EndNote and RefWorks

The Levy Library has been testing an improved export from the yellow Levy Library Find It button.  Now, when you click on the yellow button to access the full text of an article, you will also get the option to email the citation to yourself or to export the citation directly to EndNote or to RefWorks.  These exports also work with other citation management software such as Mendeley.  If for some reason you can’t get to the article from that page, let us know you found a problem through the Report an error link at the bottom of the menu.

As a reminder, to get to the yellow button links to full text through PubMed, make sure you go to PubMed through the library website.  The link is the first one under Key Journals & Resources.  This button will also show up in other databases that have citations instead of full text.

If you have any questions or feedback please let us know through our Ask a Librarian page.  We are available through phone, email, chat, text and in person. 

PubMed Change: Filters Sidebar

PubMed has made what for many of us veteran searchers is a big change. They have eliminated the limits page and replaced it with a sidebar called filters. Just click on a filter to apply it to your search. But remember, a filter will remain activated until you clear it. Here's a link to a short introductory video.

Q. Can I view articles from PubMed on my Kindle?

Interesting question we were asked last week: PubMed on the Amazon Kindle? We broke the question down into two parts, and the answer to both was a qualified "yes"".

Question 1. Can I search PubMed and view citations and abstracts on my Kindle?
Yes, because your Kindle probably has 3G or WiFi access to the internet—or both. And if you have 3G or WiFi, you can search PubMed online. The current Kindle browser is limited, though: it's optimized for text-centric Web sites, and it cannot have more than one window (or tab) open at a time. From your Kindle, then, we recommend using PubMed Mobile (beta).

• PubMed Mobile (beta), available at http://www.ncbi.nlm.nih.gov/m/pubmed/, enables you to do simple keyword searches, view article abstracts, and link to some full-text. Unfortunately, it does not offer any advanced search features or indicate which articles are available in Levy Library’s full-text collection.
  
  
• For many smartphones and tablets, we prefer PubMed for Handhelds to PubMed Mobile. We've linked it from our Databases page and our guide to Levy Library's Resources for Mobile Devices. PubMed for Handhelds offers more search options than PubMed Mobile, and it links to Levy Library’s full-text. But it opens new windows to link to abstracts and full-text, so it doesn't work well on the Kindle.

Question 2: Can I read full-text articles from PubMed on my Kindle?
You can link out from PubMed Mobile to full-text if the article is available in HTML (Web) format, if it opens in the same window as PubMed, and if the article is freely available online. Remember, you won’t be able to open a full-text Web page in a new window. Also, right now the Kindle browser can't get any articles through the Library's licensed E-Journal collection because our journal manager’s search results open in a new, second window.

You can also read articles in PDF format. The last two generations of Kindles support PDF, though color is lost and graphics are rendered in grey scale. But, the Kindle browser does not have a PDF reader plug-in such as Adobe Acrobat, so you cannot link to a PDF article from PubMed—or from any Web site. Instead, you have to download articles on another computer and import them into the Kindle.

According to the Kindle’s User Guide (PDF) there are two ways to do this:

• Drag PDF files over USB to your Kindle
• E-mail PDF files to your dedicated Kindle e-mail address (found on the Settings page on Kindle or the Manage Your Kindle page on Amazon).
  For more details, please see the support information on Amazon’s Web site or the User Guide.

So, if you are online, you can search PubMed on your Kindle. And, online or offline, you can read downloaded PDF's. It's more complicated than it would be on a tablet or many smartphones, but we expect the technology to get better with time. Stay tuned.

A full-text update to UpToDate!

UpToDate now includes links from the citations to the full text of articles provided by Mount Sinai!  To get to full text articles, scroll down to the References section and click on the citation you are interested in.   That will take you to a new page, with the article abstract and a "Find Full-Text" button.  

When you click on the button you will be taken to the Mount Sinai link to the full text.  Click on the "article" link, read and enjoy!

 

Watch out for the PubMed link next to the Find Full-Text button!  Unfortunately, that PubMed link doesn't usually show the full text available through the library.  To make those links work, go into PubMed from the library website first, then go back using the same browser window and go into UpToDate.  Remember, UpToDate is only available from on campus. 

Classes! Scopus, EndNote, NCBI, etc.

We've just added some classes to our schedule, including a few new ones. If you're interested in finding out who is citing your papers, or using that information to calculate metrics like the h-index, sign up to learn about one of our newest resources, SciVerse Scopus. And, as usual, we have lots of classes available to help you with all kinds of things, including literature searches (Scopus, PubMed), managing your references (EndNote, RefWorks), preparing presentations and publications (Photoshop, PowerPoint), and finding genetic and genomic information (NCBI, genome browsers, pathway analysis software and more).

You can find more information and register for classes at http://librarycf.mssm.edu/levy/classes/.

Happy MeSH Day! I mean - Match Day!

If you do a lot of PubMed searching, you may have noticed that the MeSH database has gotten an update recently. Remember the old "Send to" drop-down menu to send MeSH terms to PubMed? No? Well, now you don't have to. If you want some tips on using the new interface, take a look at our web guide or our PDF handout, or just read below:

From the drop-down menu that normally says PubMed, pick MeSH, and enter the concept you're looking for:

 

 

 

Click on the MeSH heading that looks best for more options:

 
On this screen you can select any subheadings that are appropriate, or check off Restrict to MeSH major topic. Then, look over on the right for the PubMed Search Builder:
 
Click Add to search builder. You can use the Search PubMed button at this point, or repeat the above steps to add more MeSH terms to your search:

 
When you've constructed your query, use the Search PubMed button to see your results:

 
If you don't get any results, try different search terms. Or, maybe the lack of results is itself significant...

And as always, if you already know a MeSH term, you can use it to search PubMed directly using the [mesh] tag, or [majr] for major MeSH headings. You can even include subheadings, by using a "/". Some more examples:

saints[mesh]
solanum tuberosum[mesh]
internship and residency[majr]
beer/utilization[mesh]
beer/adverse effects[majr]

Happy St. Patrick's Day everyone, and congratulations to our fourth year medical students this Match Day!

Each one = 1,000 words

NCBI has a new images database! At http://www.ncbi.nlm.nih.gov/images, you can find images from articles in NCBI's full-text collections: that is, any article that has been deposited to PubMed Central (so, any recent NIH funded research). Find clinical photographs, graphics of molecular mechanisms, graphs of data, anatomical diagrams...anything you might find published in an article.

You'll also see images appearing in PubMed records now - so even before you get to the full-text, you'll see the figures in articles like "Fauna used in popular medicine in Northeast Brazil" (parrots!). A warning to the squeamish though - you're also going to start seeing images for articles like "Viscoless Microincision Cataract Surgery". So be careful!

More PubMed Help

If you are or were a student at Mount Sinai, you probably (hopefully?) remember learning some PubMed search skills in your first year. If your first year was recently, you probably went through our online tutorial and took an online quiz to show us that you had mastered the basics. It's that time of year for the new graduate students (welcome, PhD, MD/PhD, MS and PREP students!) and the PubMed Tutorial for Biologists has been updated to reflect all the changes that have happened in PubMed over the past year or so. And there have been a lot of changes! So even if you are not a first year student, might not be a bad idea if you have a few minutes to take a quick glance at the tutorial and update your search skills. After all, since this time last year PubMed has added about 840,000 articles for you to search through!

PubMed Troubles and Alternate Access

At the moment on-campus access to PubMed and other NCBI resources is down. We're investigating what's happening and hopefully access will be back soon. In the meantime, if you need to get some articles from PubMed, you can try one of our other interfaces to MEDLINE (i.e., most of the content of PubMed):

Through the Web of Science interface: this interface lets you search MEDLINE like you would search Web of Science (it even lets you search both at once!). It works really well for importing citations into EndNote, and for citations that are in both MEDLINE and Web of Science, you can see how many times they have been cited, and by whom.

Through the OvidSP interface: this interface works like the interface we use for PsycINFO, and is popular at many other institutions.

Both of these interfaces use different search algorithms than PubMed, so the exact same search may get different results across the three interfaces. At the Levy Library we love PubMed for its Automatic Term Mapping feature, but these others have perks as well, especially when PubMed is down!

New Stuff!

If you haven't already, make sure you check out the new issue of Levy Library News for information about some new resources and changes. A sneak peak:

• Online access to Medical Letter!
• A new online brain atlas, with lots of extra features
• SciFinder Scholar is now on the web
• New online journals!
• Fixes for that pesky 2010 problem with EndNote
• More PubMed interface changes

Happy reading!