September 2017: NCBI to present EDirect workshop at NLM


On September 18, 2017, NCBI staff will offer a workshop on EDirect, NCBI’s suite of programs for easy command line access to literature and biomolecular records. To join the workshop, please register.

NOTE: This is an in-person workshop at the National Library of Medicine on the NIH campus in Bethesda, MD, USA. The course is limited to 22 participants.

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New on YouTube: Automate PubMed Searches & Save Citation Collections with My NCBI


The newest video on the NCBI YouTube channel will show you how to have your PubMed searches automatically run and the results emailed to you daily, weekly or monthly. You will also learn how to create PubMed collections that you can share with others or keep privately for yourself.

Subscribe to the NCBI YouTube channel to receive alerts about new videos ranging from quick tips to full webinar presentations.

New video on the NCBI YouTube channel: How You and Your Journal Club Can Contribute Using PubMed Commons


The newest video on the NCBI YouTube channel discusses how eligible individuals and journal clubs can join PubMed Commons and contribute comments.

PubMed Commons enables members to post comments about publications, which appear directly below abstracts in PubMed.

Subscribe to the NCBI YouTube channel to watch and receive alerts about new videos ranging from quick tips to full presentations.

New on YouTube: “NCBI Minute: Tailor Your PubMed Search Experience with My NCBI”



The recording of the June 28th webinar on My NCBI is now on YouTube.  In this NCBI Minute, we show you how to automatically highlight keywords, create custom filters that can be active every time you run a search, and permanently display up to 200 items per results page.

The NCBI Minute is a series of short webinars that give a brief introduction to a specific topic or NCBI tool. Learn about future presentations on the Webinars and Courses page.

July 19th NCBI Minute: Automate PubMed Searches & Save Citation Collections with My NCBI


Would you like to have new PubMed citations for your topic of interest conveniently appear in your email inbox or quickly collect those records for further review? Join NCBI on July 19, 2017, when we’ll show you how to have your PubMed searches automatically run and the results emailed to you daily, weekly or monthly. You will also learn how to create PubMed collections that you can share with others or keep privately for yourself. Don’t have a My NCBI account yet? Get started at MyNCBI.

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July 12th NCBI Minute “Crowdsourcing Post-publication Comments: How You and Your Journal Club Can Contribute Using PubMed Commons”


Join us for the next NCBI Minute, “Crowdsourcing Post-publication Comments”, where you’ll learn how eligible individuals and journal clubs can join PubMed Commons and contribute comments.

Date and time: Wednesday, July 12, 2017 12:00 PM – 12:30 PM EDT

After registering, you will receive a confirmation email with information about attending the webinar. After the live presentation, the webinar will be uploaded to the NCBI YouTube channel. Any related materials will be accessible on the Webinars and Courses page; you can also learn about future webinars on this page.

PubMed Commons enables members to post comments about publications, which appear directly below abstracts in PubMed. Researchers and practitioners regularly assess articles in exchanges with colleagues and in journal clubs. PubMed Commons is one place where you can make key points from those discussions public and discoverable.

PubMed is now available for download without a license and can be updated every day!


This blog post is directed toward PubMed users.

Did you know you can download the entire PubMed database, and keep this dataset current with our daily update files? These data are available for free from our FTP site and no longer require a license agreement,  whether you’re interested in text mining, or want to create your own database for searching and analytics.

Each year in December, NLM releases a comprehensive (baseline) set of citation records in XML format for download. Every day, incremental update files are made available and include new, revised and deleted citations. Please see the README.txt file for more information and contact info@ncbi.nlm.nih.gov with questions.

June 28th NCBI Minute: Tailor Your PubMed Search Experience with My NCBI


Join NCBI on June 28, 2017, when we’ll show you how to use your My NCBI account to get dynamic PubMed results. In this webinar, you will learn how to automatically highlight keywords, create custom filters that can be active every time you run a search, and permanently display up to 200 items per results page.

Date and time: Wednesday, June 28, 2017 12:00 PM – 12:30 PM EDT

After registering, you will receive a confirmation email with information about attending the webinar. After the live presentation, the webinar will be uploaded to the NCBI YouTube channel. Any related materials will be accessible on the Webinars and Courses page; you can also learn about future webinars on this page.

The NCBI Minute is a series of short webinars that give a brief introduction to a specific topic or NCBI tool.

Institutional Repositories in PubMed: a new quick way to free full text articles


New icons are starting to appear in PubMed that take you directly to free full text publications uploaded in an institutional repository (IR). Here’s an example:

DeepBlue

This one is from Deep Blue, University of Michigan’s Library IR. When you see it on a publication like this one on Ebola, you can get free access to the publication there.

The icons only appear when there is no free full text available from the journal or PMC (PubMed Central). So far, only 4 IRs with eligible publications are participating – you can see which ones they are here. They already expand access to around 25,000 publications.

The NCBI program that enables this is LinkOut. You can read more about it in the NLM Technical Bulletin. IRs can apply by email to join LinkOut. And if you are an author at an institution with a repository, support your IR and enable more people to read your work.

PubMed Citations: A New, Faster Process for Correcting Errors


This blog post is directed toward all authors who have articles in PubMed.

Have you ever discovered that your name isn’t spelled correctly in the citation on a PubMed record, or that there are mistakes in your affiliation, the title of the abstract, or other citation data?

We have good news: recently, NLM released the PubMed Data Management System (PMDM), which allows publishers to correct PubMed citation data directly. If you’re an author who has found citation mistakes in PubMed, you should contact the publisher of the journal, and they will make the changes. Changes made in PMDM, should appear in PubMed within 1-2 days.

Authors who report citation errors to NLM will be asked to contact the publisher directly. However, NLM will continue to investigate and address error reports that relate to our value-added data, such as MeSH Headings.

We’re hoping that this new process will shorten and simplify the process of correcting citation errors. You can read more about PMDM in the NLM Technical Bulletin. Please let us know if you have questions or comments, and we’re looking forward to more error-free citations!