On Wednesday, October 19, 11:00am – 12:00pm PDT, NLM will host the first session of a new Insider’s Guide to Accessing NLM Data series of webinars, beginning with Welcome to E-utilities for PubMed. The webinar series will promote more powerful and flexible ways of accessing NLM data, starting with an introduction to the Application Programming Interfaces (APIs) for PubMed and other NCBI databases. The series is geared toward 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, and then move on to showing 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 for subsequent Insider’s Guide classes. The session will conclude 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!
Archive for the ‘NCBI’ Category
Remote site registration is available for a series of three three-hour NCBI Discovery Workshops hosted by the Taubman Health Sciences Library at the University of Michigan on October 4-6, with instructors Peter Cooper, Ph.D., and Wayne Matten, Ph.D. The sessions will be streamed using BlueJeans. The workshops are:
- Tuesday, 10/4, – Navigating NCBI Molecular Data Using the Integrated Entrez System and BLAST
- Wednesday, 10/5, – A Practical Guide to NCBI BLAST
- Thursday, 10/6, – EDirect: Command Line Access to NCBI’s Biomolecular Databases
To improve security and privacy, and to comply with a Federal government mandate, NCBI is moving all of its Web sites and services, including Web APIs, to HTTPS only by September 30, 2016. This change will provide users with greatly increased privacy and security on the NCBI site. To prepare for this change, NCBI will be running a series of tests. During testing, most web traffic will be moved to HTTPS for a short period to check for problems and ensure all resources work properly within HTTP. NCBI will also host the 30-minute webinar Update on NCBI’s Transition to HTTPS on September 21 to discuss testing plans and other issues related to the change.
The first test is scheduled for 5:00 – 6:00 AM PDT, on Thursday, September 15, 2016. A second round of tests is scheduled for September 22 and 26. If you experience problems with any NCBI site or service during test periods, visit the Secure Website Tests plan for advice on how to proceed.
NCBI is retiring the Leiden Open Variation Database (LOVD) on September 30, 2016. LOVD has been used to capture information about novel human variants. Past submitters of human genetic variations to LOVD are encouraged to transfer their information to the ClinVar database. To add new human variation data, please review the instructions on submitting to ClinVar. The submission wizard may ease the process. While the LOVD site will be retired on September 30, an FTP archive will continue to store LOVD data for download after this date.
Following the latest biomedical literature can be a challenge, but NCBI’s new PubMed Journals resource will help you keep up-to-date.
Use PubMed Journals to:
- Easily find and follow journals of interest.
- Browse new articles in your favorite journal(s).
- Keep up-to-date with a Journal News Feed containing new arrivals, news links, trending articles, and important article updates (retractions and more!).
To follow a journal, you’ll need to be logged in to your NCBI account. PubMed Journals is an experiment of PubMed Labs, NCBI’s product incubator for delivering new features and capabilities to NCBI end users.
On Wednesday, September 7, the National Center for Biotechnology Information (NCBI) will host a 30-minute webinar briefly describing future plans for the E-utilities API in a time where GI (GenInfo Identifier) numbers are no longer used as the primary identifiers for sequence records. You will learn how to convert GI numbers to accession.version identifiers and how to quickly determine the most recent version of an accession. You’ll also learn about a new E-utility parameter, to be released this fall, that allows these tools to work only with accession.version identifiers.
Date and time: Wednesday, September 7, 9:00 AM PDT
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.
SciENcv users can now create biosketches in the Institute of Education Sciences (IES) biographical sketch format which can be used to apply for IES funding. In addition, users can also export their citations from the IES Education Resources Information Center (ERIC) database to My Bibliography. This newly added biosketch format is available to download in PDF, MS Word or XML, and users are able to share their SciENcv IES biosketches through a public URL.
The IES biographical sketch consists of five sections:
- Education and Training
- Personal Statement
- Work Experience, Professional Memberships, and Honors
- Contribution to Education Research
- Research Support/Scholastic Performance
Creating SciENcv Profiles Using the IES Biographical Sketch Format
There are three ways to create a SciENcv profile in the IES biographical sketch format: entering information manually, copying information from an existing SciENcv biosketch, or using an external data source to populate a biosketch. Further details are available in the NLM Technical Bulletin.
To comply with new government-wide security standards, all NCBI Web pages and API services will switch to the secure HTTPS protocol on September 30. At that time, when you visit NCBI web pages, you will see a green lock and https:// in the address bar instead of http://. This lets you know that you are really on an NCBI page; that the server identity is confirmed and that communication with the server is encrypted and private. General users of NCBI web pages need not update or change anything. You don’t need to clear your cache or update any links to NCBI pages that you’ve put on your own webpages or shared with anyone. All pages will automatically redirect to https://.
To help users transition smoothly with this change, registration is available for the 15-minute NCBI Minute webinar Important Changes to NCBI Web Protocols, on Wednesday, July 27, at 9:00 AM PDT. The session will cover details about how this change will affect access to NCBI pages and services. After the live presentation, the webinar will be archived on the NCBI YouTube channel for future viewing.
The NLM exhibit booth at the Annual Meeting of the Medical Library Association (MLA) featured theater presentations to bring users up-to-date on several NLM products and services. Presentation recordings are now accessible from the NLM web site. The average video length is 20 minutes.
NCBI has a new Twitter feed, @ncbibooks, to announce new books and documents available on the NCBI Bookshelf. An online resource providing free access to the full text of books and documents in life sciences and health care, the Bookshelf currently provides access to over 4,500 titles.
The Bookshelf is continuously expanding with new materials as well as receiving updates to existing books & documents. Between May 16 and May 20, 2016, for example, 19 new titles were added. Among the new titles are several Agency for Healthcare Research and Quality reports, health technology assessments and systematic reviews from Canadian Agency for Drugs and Technologies in Health and National Institute for Health Research (UK), and World Health Organization guidelines on daily iron supplementation.