Archive for the ‘PubMed’ Category
On April 14, NN/LM PSR presented Effective Use of PubMed for the NLM Express webinar series. Terry A. Jankowski, Assistant Director for User Experience, Health Sciences Library, University of Washington, provided some tips and tricks for challenging or difficult PubMed searches.You can view the webinar by visiting our Distance Learning page or by clicking on the YouTube video player below.
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This month, the National Library of Medicine’s Disaster Lit database added its 10,000th record on the clinical and public health aspects of natural disasters, human-caused disasters, terrorism, disease outbreaks, and other public health emergencies. Disaster Lit describes and links to reports, webinars, training, conferences, factsheets and other documents that are not commercially published. Disaster Lit complements the journal literature in PubMed and the resources for the public in MedlinePlus. Materials are carefully selected by NLM medical librarians and subject experts from nearly 1,000 approved sources and provide current awareness for health professionals, first responders and emergency planners who have disaster health responsibilities.
New content is sent daily to nearly 14,000 subscribers via RSS, Twitter, email subscriptions, and the DISASTR-OUTREACH-LIB listserv. Disaster Lit plays a key role in collecting the earliest available trusted medical guidance soon after a disaster event or disease outbreak, often long before the same guidance can be published in peer-reviewed medical journals.
Disaster Lit supports other federal disaster information programs by providing the:
The Disaster Lit collection of grey literature was started in 2002 by the New York Academy of Medicine, with funding from the National Library of Medicine (NLM) National Information Center for Health Services Research (NICHSR). In 2010, the database moved to the then-new Disaster Information Management Research Center, Specialized Information Services (SIS) Division, NLM. The database continues to grow with funding support from SIS, NICHSR and the National Institute of Environmental Health Sciences.
Questions or comments may be sent to the Disaster Information Management Research Center.
Last month marked the third anniversary of the White House’s Office of Science and Technology Policy (OSTP) memorandum directing Federal agencies with more than $100 million in annual research and development (R&D) expenditures to develop plans for increasing public access to the results of the research they support, including scholarly publications. As a result of this directive, in 2015, PMC started providing support as a public access repository for funding agencies beyond the National Institutes of Health (NIH) and Howard Hughes Medical Institute (HHMI).
As of March 2015, the following additional agencies are using the NIH Manuscript Submission (NIHMS) system to facilitate the deposit in PMC of peer-reviewed manuscripts that fall under their public access policies:
- Agency for Healthcare Research Quality (AHRQ/HHS)
- Centers for Disease Control and Prevention (CDC/HHS),
- Food and Drug Administration (FDA/HHS),
- National Institute of Standards and Technology (NIST), and
- U.S. Department of Veterans Affairs (VA)
Additionally, the following additional HHS and other federal agencies have announced public access plans and committed to using PMC as the repository for agency-funded publications:
- Administration for Community Living (ACL/HHS)
- Assistant Secretary for Preparedness and Response (ASPR/HHS)
- Environmental Protection Agency (EPA)
- National Aeronautics and Space Administration (NASA)
PMC will continue to update the list of participating funding agencies at Public Access and PMC as these agencies begin implementation of their policies.
More information about the current status of public access expansion as a result of the OSTP memo can be found on the White House blog.
PubMed subject filter strategies are reviewed each year to determine if modifications are necessary. Modifications may include revisions due to changes in Medical Subject Heading (MeSH) vocabulary or MEDLINE journals, adding or deleting terms, and changing parts of a strategy to optimize retrieval. The following subset strategies were recently revised:
- Complementary Medicine
- Dietary Supplements
- Space Life Sciences
- Systematic Reviews
On January 27, 2016, two new MeSH headings were added to the 2016 MeSH Browser in response to increased reports in the literature about the Zika virus outbreak and its tentative association with microcephaly in newborns as well as possible paralysis and Guillain-Barre Syndrome in adults:
The terms also appeared in the MeSH export file available to licensees on January 27, 2016. Indexing for the new headings began January 28, 2016. In addition, NLM Indexing staff will review citations previously indexed on this topic to determine if the new headings should be applied to the citations. Here is a suggested interim PubMed search strategy to retrieve citations on Zika until the review of previously indexed citations is completed:
Using the [tiab] search tag finds citations that have already been indexed with MeSH or are still in process. The tag restricts retrieval to the article title, abstract, or author keyword fields and prevents false drops from other fields such as author name.
A Zika Virus Health Information Resources page, from the Disaster Information Management Research Center at NLM, gathers resources on the emerging health issues arising from the Zika Virus. For additional information see the article, NLM Disaster Information Management Research Center Resource List Updates.
NIH-supported scientists have made over 300,000 author manuscripts available in PMC. Now NIH is making these papers accessible to the public in a format that will allow robust text analyses.
You can download the PMC collection of NIH-supported author manuscripts as a package in either XML or plain-text format. The collection encompasses all NIH manuscripts posted to PMC that were published in July 2008 or later. While the public can access the manuscripts’ full text and accompanying figures, tables, and multimedia via the PMC website, the newly available XML and plain-text files include full text only. In addition to text mining, the files may be used consistent with the principles of fair use under copyright law. Please note that these author manuscript files are not part of the PMC Open Access Subset.
The NIH Office of Extramural Research developed this resource to increase the impact of NIH funding. Through this collection, scientists will be able to analyze these manuscripts, further apply NIH research findings, and generate new discoveries. For more information, please visit the PMC author manuscript collection webpage.
On January 20, join NLM staff for a highlights tour of the 2016 Medical Subject Headings (MeSH). A 30-minute presentation will feature a MeSH tree clean-up project; a new Clinical Study publication type; changes to the trees for diet, food and nutrition; restructuring in pharmacology and toxicology; and new terms in psychology and health care. Following the presentation, Indexing and MeSH experts will be available to answer your questions.
Webinar: 2016 MeSH Highlights
Date and time: Wednesday, January 20, 2016, at 9:00 am PST
View a recording of the presentation.
For more information about 2016 MeSH, see What’s New for 2016 MeSH and the Introduction to MeSH – 2016.
As of December 15, PubMed/MEDLINE citations (including the backlog of citations indexed since November 18 with 2016 MeSH), the MeSH database, and the NLM Catalog were updated to reflect 2016 MeSH. The MeSH translation tables were also updated on December 15. Now that end-of-year activities are complete, MEDLINE/PubMed may be searched using 2016 MeSH vocabulary. See MEDLINE Data Changes — 2016 for details on the data changes. On December 16, NLM resumed daily MEDLINE updates to PubMed.
The PubMed for Nurses Tutorial is available now from the PubMed Online Training page on the NLM Web site. This tutorial was created specifically to help nurses efficiently find literature using PubMed. Its concise, targeted content consists of five videos with exercises to test your knowledge. The tutorial was designed to be completed in less than 30 minutes.
The PubMed for Nurses Tutorial was researched, designed and developed by Megan Kellner from Maryland’s iSchool, the College of Information Studies at the University of Maryland, in consultation with nurses and librarians who serve nurses around the United States.
The PMC Overview and FAQ have been updated to provide more information on the Scientific Quality Review Process for journals that apply to participate in PMC. In 2014, PMC implemented a scientific and editorial quality review procedure whereby expert consultants from outside the National Library of Medicine (NLM) conduct an independent review of journals seeking to participate in PMC. This was in response to a significant increase in new publishers and journals applying to participate in PMC, many of which are unknown to NLM in terms of quality and publishing practices. The independent review, which was approved by the PMC National Advisory Committee (see minutes from June 10, 2014), follows an assessment by NLM that the journal meets NLM’s criteria for its collection, as outlined in the Collection Development Manual.
PMC also recently updated the minimum requirement on the number of substantive, peer-reviewed articles needed before a journal can apply to PMC. The new 25-article minimum ensures that the reviewers have a sufficient amount of content on which to base their recommendation for inclusion in PMC. The new minimum article requirement takes effect on January 1, 2016. Publishers are encouraged to use the 25-article minimum as a guideline in the interim when submitting applications.