Duke Medical Center Library & Archives
Tag: pubmed

Update for PubMed's Best Match Sort
Posted On: Monday, January 29, 2018 - 09:45 by Jesse Akman

At the end of 2017, PubMed unveiled its updated Best Match sort order algorithm.  Rather than sorting search results by publication date, Best Match allows you to sort by relevancy. The new algorithm incorporates machine learning to re-rank the top articles returned for improved relevance. This update builds on the original Best Match sort algorithm's term frequency ranking. For more information about the updated Best Match sort, check out this blog post from the National Library of Medicine.

If you have further questions about PubMed, the Library offers this handy tipsheet on PubMed Basics...

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Categories: Resource Updates

Tags: pubmed, NIH, for researchers, NLM

Access "My NCBI" with your Duke NetID and password
Posted On: Tuesday, April 11, 2017 - 15:25 by Erica Brody

PubMed’s My NCBI tool allows you to set personal preferences, store both search strategies and citation collections, and create alerts by offering automatic e-mail updates and RSS Feeds of stored searches. Register for My NCBI by creating a User Name and Password. The preferred method of creating a My NCBI account is to register for it by clicking the "Register for an NCBI account" on the My NCBI sign in page and following the instructions.

Once you have a My NCBI account and you are logged in, you can click on your username at the top right of the NCBI screen to access your account settings. On this screen, you will see a box called “Linked accounts” where you can link your NCBI account to a “3rd party option” such as...

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Categories: Explore Tools

Tags: pubmed, My NCBI, passwords

Have you ever wanted to respond to a PubMed article?
Posted On: Tuesday, March 7, 2017 - 12:51 by Erica Brody

PubMed Commons lets you in on the research conversation. It is a system that enables researchers to share opinions and information about scientific publications. If you are listed on even one item indexed in PubMed, you are eligible to become a member of PubMed Commons. You will need a My NCBI account and an invitation to join PubMed Commons. Both are free of charge.

Getting an invitation to PubMed Commons:

  •  E-mail addresses of eligible authors have been collected from the NIH, the Wellcome Trust and authors' email addresses in PubMed and PubMed Central....
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Categories: Explore Tools

Tags: pubmed, for researchers, My NCBI, publications, research

Get More from PubMed
Posted On: Tuesday, October 25, 2016 - 15:57 by Brandi Tuttle

Have you ever wondered if you are getting all that you can from PubMed? Check out these tips and tricks to make sure you are finding all the research on your topic and getting free access to articles in the Duke collections.

1. Click on PubMed from the Medical Library’s Website to get full text available through Duke, or bookmark the link: https://mclibrary.duke.edu/pubmed

PubMed is liberally scattered throughout the Medical Library’s Website (on the main page under Quicklinks, Clinical Tools page, and more). Using one of these PubMed links...

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Categories: Databases, Resource Updates

Tags: pubmed, research, literature search, My NCBI

Why YOU should have a My NCBI Account
Posted On: Monday, March 28, 2016 - 16:04 by Alex Mesa

NCBI (National Center for Biotechnology Information) has 60+ databases, including PubMed, MeSH, Bookshelf and others you may be familiar with. In this blog post, we are looking at My NCBI a free, personalized account for YOU to use in conjunction with all of NCBI.

My NCBI allows you to save searches, save collections of citations, manage filters, and save site preferences for major NCBI databases. For anyone with NIH funding, it is best to log into My NCBI by clicking on NIH Login and using your eRA Commons credentials. For those without an eRA Commons account, we recommend logging in with your Duke NetID....

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Categories: Explore Tools

Tags: My NCBI, NIH Public Access Policy, NIH, pubmed

PubMed Searching Tips!
Posted On: Wednesday, March 9, 2016 - 11:39 by Alex Mesa

Here are a few tips to help improve your PubMed searching experience.

1. Single Citation Matcher
Use the Single Citation Matcher to find the correct citation with only a few pieces of information available. Best recommendation is to fill-in Journal title, year, and page number, but not the whole citation!

2. Use PubMed through the DUMC Library Website
Select either PUBMED (MEDLINE) under the Quicklinks or search PubMed at the top of the Web page. This ensures you will have access to full text provided by the Library.

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Categories: Databases

Tags: pubmed

PubMed Commons
Posted On: Friday, December 6, 2013 - 17:46 by Leila Ledbetter

PubMed Commons
System for commenting on articles in PubMed

In October, NCBI released a pilot version of a new service in PubMed that allows researchers to post comments on individual PubMed abstracts. PubMed Commons was created in response to repeated requests by the scientific community for such a forum to be part of PubMed.

According to NCBI, “PubMed Commons is a forum for open and constructive criticism and discussion of scientific issues. It will thrive with high quality interchange from the scientific community.”

PubMed Commons...

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Categories: Explore Tools, Resource Updates

Tags: pubmed

Quertle: An Alternative Search Engine to PubMed
Posted On: Thursday, February 9, 2012 - 17:07 by Beverly Murphy

What is it? Alternative semantic search engine for PubMed

There are many alternative interfaces to PubMed, but Quertle tries to do something more. It includes additional content, including open access articles from PubMed Central and BioMed Central, grant documents from NIH’s RePORTER database, drug and chemical information from TOXLINE...

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Categories: Explore Tools

Tags: pubmed

PubMed's Advanced Search Gets a Makeover
Posted On: Tuesday, December 13, 2011 - 12:36 by Beverly Murphy

Late yesterday afternoon, PubMed released some new updates to its interface, the most notable of which is a makeover for the Advanced Search page. As many of you know, this is the place to combine multiple sets to refine or expand your search. The updates are mostly cosmetic, but here's a short list to keep you searching:

  • An Add link now appears in the table to make it easier to combine sets from your history using the search builder boxes. You can still type them in yourself if you prefer - just be sure to include the # before the set number to ensure the system knows you are referring to a specific set.
  • The builder and the search box have been combined. This won't make much difference to most users, since having them separate often meant...
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    Tags: pubmed

    iPads: Accessing Library Resources from Home
    Posted On: Friday, July 23, 2010 - 14:25 by Beverly Murphy

    Those of you with iPads (and those of you still mulling the purchase over) may be curious about how to access library resources on your iPad. If you are on the Duke wireless network, you should have few problems accessing our tools. Some of our resources may not look perfect on the mobile Safari browser, but as long as you are on the Diamonds wireless network, you should not be prompted for additional user names and passwords.

    If you are at home, however, you may run into some problems. The OIT Help Desk reports that the Duke and DHTS VPNs will not work on the iPad. Until they work out a solution, you will not be able to access some of the Medical Center Library's resources, which do require the VPN, on the device.

    The good news is that many of our resources will work....

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    Tags: pubmed

    Explore: PubGet
    Posted On: Tuesday, June 15, 2010 - 13:28 by Beverly Murphy

    Pubget is an alternate interface for PubMed that makes it ridiculously easy to get PDFs of articles. Set your library preferences to Duke University, then search for an article or subject. Pubget delivers your results with whatever PDFs Duke subscribes to pre-loaded with your results.

    There is a downside to Pubget, and it’s in the searching. Pubget strips out all the cool mapping and indexing that happen behind the scenes in PubMed (or with the MeSH database, if you’re used to using that), and instead serves up results that are sometimes befuddling. We all know there are probably more than 10,000 articles on heart attacks in PubMed, but that’s all Pubget finds. So if you are trying to do a thorough search, stick with PubMed. Now, if you just need to find a PDF for an article you...

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    Categories: Explore Tools

    Tags: pubmed

    New PubMed: Exporting Citations into EndNote
    Posted On: Friday, January 15, 2010 - 17:00 by Beverly Murphy

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

  • Use the Display Results link and limit your download (using File Save As from your browser) to 200 citations.
  • 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!

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    Tags: pubmed, endnote, citation management