August 23 NCBI Minute: Using the Run Selector to Find Relevant Next-Generation Sequencing (NGS) Datasets


Do you have trouble searching the NCBI webpage for relevant datasets? Wish you could filter the search results more precisely? You can with SRA Run Selector.

In this NCBI Minute, you’ll learn how to filter the SRA database using the metadata details captured for each submitted dataset. This is easily done in a spreadsheet format that displays all recorded metadata for each SRA Run. The user-friendly interface allows you to selectively filter datasets down to the most relevant data for your research question and then export it in a spreadsheet.

Date and time: Wednesday, August 23, 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.

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.

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.

June 7th NCBI Minute: PubChem: A source of laboratory chemical safety information


On June 7, 2017, NCBI staff will show you how to use PubChem’s Laboratory Chemical Safety Summary (LCSS) to find the most relevant chemical safety information including flammability, toxicity, exposure limits and symptoms, first aid, handling and clean up.

Date and time: Wednesday, June 7, 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.

May 10th NCBI Minute: How to Locate and Use Human Genomes and Annotations from NCBI


Next week, NCBI staff will show you how to quickly find and download human genome annotations from both the web and the command line for incorporation into your workflows. We will also show you how to convert the accessions in these files to those used in other bioinformatics databases, as well as how to visualize these annotations on our Genome Data Viewer.

Date and time: Wednesday, May 10, 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 from the Webinars and Courses page; you can also learn about future webinars there.

NLM Webinar series: “Insider’s Guide to Accessing NLM Data: EDirect for PubMed”


Beginning February 21, 2017, the National Library of Medicine (NLM) will present the three-part webinar series “Insider’s Guide to Accessing NLM Data: EDirect for PubMed.”

This series of workshops will introduce new users to the basics of using EDirect to access exactly the PubMed data you need, in the format you need. Over the course of three 90-minute sessions, students will learn how to use EDirect commands in a Unix environment to access PubMed, design custom output formats, create basic data pipelines to get data quickly and efficiently, and develop simple strategies for solving real-world PubMed data-gathering challenges. No prior Unix knowledge is required; novice users are welcome!

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The NCBI Minute: quick introductions to NCBI resources


For over two years, NCBI has presented webinars on a wide range of topics to a growing audience. More recently, we began offering shorter webinars in a series called The NCBI Minute.

These presentations introduce a new NCBI tool or resource or provide quick tips for using a popular resource in 5-10 minutes.

screenshot of popular NCBI Minute presentations on YouTube

Figure 1. Examples of popular NCBI Minute presentations; SmartBLAST Introduction presented September 2 (YouTube), and Connecting with PubMed Commons presented May 2 (YouTube).

Each NCBI Minute is recorded and posted on our YouTube channel in the NCBI Minute playlist. Two of our most popular NCBI Minute presentations (Figure 1) are the introduction to the new SmartBLAST service, first described on NCBI Insights in July, and Connecting with PubMed Commons, our public commenting service for PubMed articles described in several NCBI Insights posts.

Missed a presentation? No problem!

If you missed any of The NCBI Minute, there are two ways you can catch up:

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NCBI’s 3 Newest Medical Genetics Resources: GTR, MedGen & ClinVar


GTR_ClinVar_MedGen imageNCBI has three relatively new online resources for information about genetic tests, genetic conditions, and genetic variations:

  • The Genetic Testing Registry, or GTR – a registry of genetic tests for heritable and somatic changes in humans
  • MedGen – a medical genetics portal that focuses on information about medical conditions with a genetic component
  • ClinVar – an archival database that contains reported assertions about the relationship between genetic variations and phenotypes

This blog will provide a very brief overview of the three resources by outlining some of their content features. For a more thorough introduction to the three resources, including the types of information available in each and how to use them, we recommend viewing this approximately hour-long webinar that we conducted in June 2014.

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