NLM Webinar: Insider’s Guide to Accessing NLM Data: Welcome to E-utilities for PubMed (Tuesday, February 13 at 1pm EST)


Want to do more with PubMed?

Want to extract just the PubMed data you need, in the format you want?

Dreaming of creating your own PubMed tool or interface, but don’t know where to start?

Join us on Tuesday, February 13 at 1pm EST for a one-hour introductory webinar designed to teach you more powerful and flexible ways of accessing NLM data, starting with the Application Programming Interfaces (APIs) for PubMed and other NCBI databases. This presentation is part of the Insider’s Guide, a series aimed at librarians and other information specialists who have experience using PubMed via the traditional Web interface, but now want to dig deeper.

This class will start with the very basics of APIs, before showing you how to get started using the E-utilities API to search and retrieve records from PubMed. The class will also showcase some specific tools and utilities that information specialists can use to work with E-utilities, helping to prepare you for subsequent Insider’s Guide classes. We will finish by looking at some practical examples of E-utilities in the real world, and hopefully inspire you to get out and put these lessons to use!

Date and time: Tuesday, February 13, 1:00 pm – 2:00 pm EST

To register or for more information go to: https://goo.gl/jCWP7A

Questions? Contact us at https://dataguide.nlm.nih.gov/contact


Already know the basics of APIs, and ready to put E-utilities to use? Our hands-on Insider’s Guide course, “EDirect for PubMed”, starts March 5. For registration and more information, go to: https://goo.gl/9jSVRt

Try Our New, Experimental PubMed Search and User Interface in PubMed Labs


NLM needs your input. We are experimenting with a new PubMed search algorithm, as well as a modern, mobile-first user interface, and want to know what you think. You can try out these experimental elements at PubMed Labs, a website we created for the very purpose of giving potential new PubMed features a test drive and gathering user opinions.

Please note that PubMed Labs includes only a limited set of features at this time and not the full set of PubMed tools. The absence of a feature or tool on PubMed Labs does not mean we plan to eliminate it from PubMed; it simply means we are not testing it now!

The key elements we are testing are:

In PubMed Labs, search results are listed by best match. The best match button is at the top right; you can also click the "most recent" button (to the right of "best match") to sort by date.

  • A new search algorithm for ranking (ordering) the best matches to your query

Based on analysis of data obtained from anonymous PubMed search logs, we have developed a new algorithm that we believe does a much better job of sorting search results by their relevance, or “best match,” to your query. This new algorithm incorporates machine learning to re-rank the top articles returned.

We were so excited by results with this algorithm that we already implemented it in PubMed, but it is still experimental and we would very much appreciate hearing what you think. Part of our test in PubMed Labs is having best match be the default sort, instead of PubMed’s default of sorting by most recent articles. If you find that you prefer to sort by the most recent articles instead, it takes only a simple click of a button to do so.

Interested in specifics about the new algorithm? You can read more in this NLM Technical Bulletin.

Continue reading

October 4th NCBI Minute: Create, link and share your bibliography (PubMed & ORCID)


On October 4, 2017, NCBI staff will present a webinar on author disambiguation and the advantages of using an ORCID ID.

Disambiguating common author names is tough in any field, but if your published research is cited in PubMed, we can help you find your citations, create a bibliography, and share your publication list with others.

In this webinar, we’ll also talk about the advantage of quickly registering for a free, unique identifier that will remain constant – even if your name changes.

Date & time: Wednesday, October 4, 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. You can learn about future webinars on the Webinars and Courses page.

NCBI releases newly designed dbSNP RefSNP Report – Alpha version


NCBI dbSNP is pleased to announce a newly designed Reference SNP (RefSNP, rs) Report webpage to provide enhanced performance and presentation for access to individual RefSNP records. This Alpha version of the report enables browsing of submitted and computed RefSNP variant data from the redesigned dbSNP build system.

The new RefSNP report (alpha version). You can see all of the sections described in the blog post, like the summary section and the sidebar menu.

Figure 1. The dbSNP RefSNP Report Alpha for rs268.

Continue reading

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.

Continue reading

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.

Continue reading