Department Blog

Health Sciences Libraries

New PubMed URL

December 5th, 2016 by Deanna Johnson

The UC-eLinks button in PubMed stopped working late last week. In fixing the problem, the UCs now have a new link to access PubMed:                        http://www.ncbi.nlm.nih.gov/pubmed/?otool=cdlib&tool=cdl

The links to PubMed on the Health Sciences Libraries web pages and in the Electronic Databases A-Z list have already been updated, so if you use those links you need do nothing. However, if you have PubMed bookmarked and regularly use that bookmark, please update it to:    http://www.ncbi.nlm.nih.gov/pubmed/?otool=cdlib&tool=cdl

PubMed Relevancy Sort

November 5th, 2013 by Amy Studer

PubMed now includes a new relevance sort option.

The “Relevance” sort option is available from the “Display Settings” menu under the “Sort by” selections.  Initially, easy access to relevance sort will also be provided under a “New feature” discovery tool (see red boxes on image).

The relevance sort order for search results is based on an algorithm that analyzes each PubMed citation that includes the search terms. For each search query, “weight” is calculated for citations depending on how many search terms are found and in which fields they are found. In addition, recently-published articles are given a somewhat higher weight for sorting.

PubMed Relevancy

For additional information, please visit the NLM Technical Bulletin.

This blog entry was adapted from NewsBits Blog from NN/LM Pacific Southwest Region, October 23, 2013.

PubMed Commons

October 23rd, 2013 by Mary Wood

PubMed Commons is a system that enables researchers to share their opinions about scientific publications. Researchers can comment on any publication indexed by PubMed, and read the comments of others. 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 is currently in a closed pilot testing phase, which means that only invited participants can add and view comments in PubMed.

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How to Join PubMed Commons
For the current pilot testing phase there is a limited facility for joining that may work for you. Several organizations have provided lists of approved author e-mail addresses. If you are included on the list, you can request an invitation to join. Additional options for joining will be provided in future releases.

In order to complete the process you will also need to have a My NCBI account.

Currently, author information has been compiled from:
NIH extramural programs
NIH intramural programs
Wellcome Trust

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PubMed Commons:  Frequently asked questions
..such as  Why can’t I see any comments in PubMed?

 

New solution for logging into MyNCBI while on the VPN

March 15th, 2013 by Amy Studer
Tools

Image credit: zzpza http://www.flickr.com/photos/zzpza/3269784239/

Many of us have had problems logging into MyNCBI while logged onto the VPN.

One solution is to select the “Keep me signed in unless I sign out” button on the “Sign in to NCBI” page. Unless you sign out of NCBI, the next time you access PubMed via the VPN from this same computer/ device, you should already be signed into myNCBI.  This works on Windows, Mac and iOS.  This approach should not be used on public computers.

Here is a workaround that should permit you to log into MyNCBI while also logged onto the VPN:

1. Log onto the VPN from the HSL homepage: http://www.lib.ucdavis.edu/dept/hsl/

2. Navigate to PubMed via the PubMed link on the left under Online Resources.

3. Click “Sign in to NCBI” at the top right of the PubMed homepage.

4. Open the NCBI login frame in a new window. Instructions vary based on browser:

  • In Firefox, right click inside the smaller frame and select “This Frame/ Show Only This Frame”.
  • In Safari, right click inside the smaller frame and select “Open Frame in New Window”.
  • In Internet Explorer, right click on the “See more 3rd party sign in options”, select” Open in New Window” and on the resulting page, click on “Sign in with an NCBI account” to use NCBI login credentials.

5.  Enter NCBI username and password.  Consider selecting the “Keep me signed in unless I sign out” button.

You should now be logged in to MyNCBI and directed to the PubMed homepage.

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We hope this helps!

Please let us know if you have questions or problems:

Carlson Health Sciences Reference Librarians

hslref@lib.ucdavis.edu    |      (530) 752-7042

Good news about access to PubMed via the VPN

March 15th, 2013 by Amy Studer
Green light, top view

Green light, top view. From http://www.flickr.com/photos/mag3737/296272136/

We have good news to report from the UC Davis Library Systems Department this morning:

The problem we have been having with accessing PubMed via the VPN has been resolved.

We thank all of you who access PubMed remotely for your patience!

Please let us know if you have further problems so we can work on solutions:

Carlson Health Sciences Reference Librarians

(530) 752-7042   |    hslref@lib.ucdavis.edu

PubMed through VPN problematic

February 27th, 2013 by Mary Wood

Due to various updates and issues, PubMed and NCBI are not functioning well via VPN.

Following is a temporary workaround offered by Library Systems.

Click here for a short slideshow

Essentially: go to Pubmed outside the VPN, but go to licensed resources through the VPN…

1. Open browser to the Library’s home page.
2. Use File/New Window to produce 2 windows at the Library’s web page.
3. Bring up PubMed in one window and the VPN in the other
a. L window: Navigate to PubMed using Libraries and Collections tab /HSL menu item. PubMed link appears on the left
b. R window: Click on the VPN button and log in
4. Click the link to PubMed and begin searching.
a. L window: Get to search results and locate relevant article
5. Go to abstract display of relevant article and locate UCe-Links button by clicking on the article’s title hyperlink
a. L window: Place mouse cursor over UC-eLinks button, right click and select Copy Shortcut.
b. R window: Place mouse cursor in the dialog area to the left of the VPN menu Browse button and use CTRL V to paste the Shortcut in.
6. Navigate to the journal article if it is available.
a. L window: Article details on view in PubMed.
b. R window: Click on the VPN Browse button to arrive at article.
7. Continue viewing results in PubMed and return to VPN menu page when done viewing article
a. L window: Return to search results in PubMed by using Browser window’s Back Arrow.
b. R window: Return to VPN menu page by clicking House icon on VPN window.

For visuals, see REST OF THIS ENTRY

Read the rest of this entry »

UPDATE: NIH Public Access Compliance

February 20th, 2013 by Mary Wood

The National Institutes of Health (NIH) recently released two additional Notices that affect all NIH funded researchers:

NOT-OD-12-160: Upcoming Changes to Public Access Policy Reporting Requirements and Related NIH Efforts to Enhance Compliance 11/16/12

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2/6/13 NOT-OD-13-035:
NIH Requires Use of RPPR for All SNAP and Fellowship Progress Reports, and Expands RPPR Functionality

2/14/13 NOT-OD-13-042:
Changes to Public Access Policy Compliance Efforts Apply to All Awards with Anticipated Start Dates on or after July 1, 2013

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As the notices indicate, all NIH grant-related publications need to be deposited into PubMedCentral (PMC) within 3 months of the official publication date, otherwise they will be flagged as non-compliant by NIH.  For details on the various ways to submit articles, visit our NIH Funding Public Access Mandate Guide.  Library staff are available to offer help to researchers and their staff as they manage compliance.

Use a My NCBI account to:

. Link your My NCBI account to your eRA Commons ID and password
. Build a bibliography of grant related publications
. Link publications to grants
. Identify what is and is not in compliance
. Notify NIH when an article is not covered by the policy
. Submit your bibliography for your Research Performance Progress Report
. Share your publications with the PI and even fellow researchers
. Appoint a designate to help keep your citations current and in compliance

Previous related blogs:
NIH Public Access Compliance Monitor
1/30/13
NIH Public Access Policy Webinar for Compliance 1/5/13
NIH Notice Compliance to Impact Funding
11/19/12

Excerpted from and modified : Duke Medical Center Library Newsletter, Emily Mazure, Biomedical Research Liaison Librarian

The National Library of Medicine has released a new app: a guide to NLM mobile resources

July 23rd, 2012 by Bruce Abbott

The National Library of Medicine (NLM) has released a new mobile app that is intended to serve as the authoritative guide to NLM mobile resources. This app will collect all current NLM apps and mobile sites for easier use.

The app is available from:
http://www.nlm.nih.gov/mobile-app/ on a mobile device such as an iPhone, iPad, Android smart phone, Blackberry, or Microsoft phone.

In the app, users can find NLM Mobile resources by:

The announcement from NLM is available from: http://www.nlm.nih.gov/pubs/techbull/ja12/ja12_nlm_mobile_app.html

PubMed–revised Advanced Search Page

January 5th, 2012 by Bruce Abbott

The National Library of Medicine has released an online tutorial for the new Advanced Search Builder which replaces the previous Advanced Search page in PubMed.
http://www.youtube.com/watch?v=dncRQ1cobdc

Here’s a link to additional information on the Advanced Search Builder:
http://www.nlm.nih.gov/pubs/techbull/nd11/nd11_pm_advanced_search.html

PubMed Health

September 27th, 2011 by Bruce Abbott

The following information on PubMed Health is from the “About PubMed Health” webpage.

PubMed Health (http://www.ncbi.nlm.nih.gov/pubmedhealth/)  specializes in reviews of clinical effectiveness research, with easy-to-read summaries for consumers as well as full technical reports. Clinical effectiveness research finds answers to the question “What works?” in medical and health care.

PubMed Health is based on systematic reviews of clinical trials. These clinical effectiveness reviews can show what treatments and prevention methods have been proven to work—and what remains unknown.

PubMed Health provides summaries and full texts of selected systematic reviews in one place. The reviews were generally published or updated from 2003. There is also information for consumers and clinicians based on those reviews.

A search on PubMed Health runs simultaneously in PubMed. A filter is used to identify all the indexed scientific articles at the NLM that might be systematic reviews. This search includes articles from before 2003.

Information partners selected by PubMed Health to contribute their clinical effectiveness information are:

  • Agency for Health Care Research and Quality (US) (AHRQ)
  • The Cochrane Collaboration (CC)
  • German Institute for Quality and Efficiency in Health Care (IQWiG)
  • National Health Service (NHS) National Institute for Health Research (NIHR) Health Technology Assessment Programme (NIHR HTA)
  • National Institute for Health and Clinical Excellence guidelines program (NICE)
  • Oregon Health and Science University’s Drug Effectiveness Review Project (DERP)
  • Department of Veterans Affairs’ Evidence-based Synthesis Program from the Veterans Health Administration R&D (VA ESP)

England’s Behind the Headlines service is from the National Health Service (NHS Choices).

Further information about PubMed Health including searching suggestions is available from the NLM Technical Bulletin: http://www.nlm.nih.gov/pubs/techbull/so11/so11_pm_health.html