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Videos uploaded by user “NCBI”
Use MeSH to Build a Better PubMed Query
 
03:03
This tutorial shows how to build a targeted PubMed search starting in the MeSH database. It includes very brief background on MeSH terms and indexing.
Views: 387785 NCBI
BLAST Results: Expect Values, part 1
 
02:34
A simple description of the meaning and use of BLAST Expect values.
Views: 106361 NCBI
PubMed Advanced Search Builder
 
02:27
A tutorial describing how to use the Advanced Search Builder to help refine your PubMed searches.
Views: 359557 NCBI
Need the Full Text Article?
 
02:04
A tutorial on how to get full text articles for PubMed citations, both free and for a fee.
Views: 175893 NCBI
GEO2R: Analyze GEO Data
 
04:57
A tutorial on how to use GEO2R to analyze microarray data in GEO and retrieve a list of differentially expressed genes.
Views: 59255 NCBI
Obtain Genomic Sequence for a Gene
 
02:25
How to get sequence for a gene region, including how to get surrounding sequence.
Views: 44613 NCBI
BLAST Results: Expect Values, part 2
 
03:08
Answers to a few common questions about BLAST that we get at NCBI.
Views: 63112 NCBI
Sequence Viewer: Using Primer-BLAST
 
02:06
A quick demonstration of how to initiate Primer-BLAST from within the graphics, or sequence viewer, display in nucleotide records at NCBI.
Views: 18959 NCBI
Genome Workbench: Phylogenetic Trees
 
02:50
Create a protein multiple sequence alignment and generate the phylogenetic tree using Genome Workbench.
Views: 11651 NCBI
BLAST: Create Custom Databases for Web BLAST
 
03:30
A step-by-step tutorial showing how to limit your web BLAST searches to a customized set of sequences.
Views: 74278 NCBI
E-Utilities Introduction
 
03:47
An introduction to NCBI's Entrez programming utilities, the API to the Entrez system of databases at NCBI.
Views: 18393 NCBI
The Variation Viewer
 
04:19
This video demonstrates the basic functions of the Variation Viewer, a tool for navigating variant data in dbSNP, dbVar and ClinVar in a genomic context. Explore the application at http://www.ncbi.nlm.nih.gov/variation/view/
Views: 18015 NCBI
BLAST: New Results Format, Oct 2012
 
03:11
An introduction to a new web BLAST results format released in October 2012.
Views: 82718 NCBI
A Guide to NCBI: Gene Expression, Part 1
 
05:14
Part 1 of the gene expression module from a workshop held at the National Library of Medicine in April 2013 called, "A Librarian's Guide to NCBI." These are introductory level videos, suitable for beginning or intermediate users of NCBI resources and for those with little background in molecular biology.
Views: 35521 NCBI
NCBI: Retrieve Sequences for an Organism
 
01:36
Find and retrieve sequences for a given organism or taxonomic node
Views: 21451 NCBI
Search ClinVar with Ease
 
06:26
This video guides you through ClinVar search strategies so that you can find what you seek more efficiently. Example queries include gene names, HGVS expressions, and phenotypes. It also shows you how to use NCBI's Variation Viewer to see variants in a genomic context.
Views: 5419 NCBI
PubMed: The Filters Sidebar
 
02:02
An update to the first video of the same name. The update was necessary because the page views changed (smaller set of default filters). A different PubMed search is used, but otherwise the tutorial did not change.
Views: 88801 NCBI
Genome Workbench: Loading a Genome
 
02:26
This video shows how to search for and load an entire genome into Genome Workbench and choose the pieces you want to work with.
Views: 6087 NCBI
The New MSA Viewer
 
02:43
This is an introduction to a new multiple sequence alignment viewer for both amino acid and nucleotide sequences. The application can be embedded into web pages and has a large number of options. This video demonstrates the basic functions of the viewer. For documentation, see: www.ncbi.nlm.nih.gov//tools/msaviewer/ To get video updates, subscribe to the NCBI YouTube channel: www.youtube.com/ncbinlm
Views: 3432 NCBI
Sequence Viewer: Search Using HGVS Terms
 
02:16
Display a variation in NCBI's graphical sequence view by searching with HGVS (Human Genome Variation Society) nomenclature.
Views: 3086 NCBI
NCBI: Download a custom set of records
 
03:11
Download sequence records using text queries or Batch Entrez.
Views: 13746 NCBI
Genome Remapping Tool
 
02:56
Learn how to convert feature coordinates between assemblies within the same species.
Views: 5249 NCBI
NCBI's 1000 Genomes Browser: Introduction
 
07:39
Learn how to view variation and genotype data, as well as supporting sequence reads from the 1000 genomes project. Later videos will cover other functions, such as uploading your data. For video updates, subscribe to our YouTube channel: www.youtube.com/ncbinlm
Views: 7937 NCBI
Genome Workbench: Search and View a Gene
 
02:18
Learn how to retrieve and view sequence records from NCBI using Genome Workbench.
Views: 9986 NCBI
NCBI Minute: How to Submit Your 16S rRNA Data to NCBI
 
20:55
Presented March 29, 2017. This short webinar guides you through the submission of prokaryotic 16S rRNA sequences to GenBank using one of the new Submission Wizards. You will learn what information you need to get started, and see a demonstration of the submission interface with a real example. You'll also learn about common problems you may encounter, how to deal with them and what to expect after you click the submit button. https://submit.ncbi.nlm.nih.gov/subs/genbank/ To get video updates, subscribe to the NCBI YouTube channel: www.youtube.com/ncbinlm
Views: 9057 NCBI
Find in This Sequence
 
02:17
New feature in Entrez Nucleotide and Protein records to locate sequence patterns.
Views: 19287 NCBI
RefSeqGene
 
03:55
An overview and tutorial about RefSeqGene, a resource at NCBI that is the standard for reporting gene-specific sequence variation.
Views: 11347 NCBI
Sequence Viewer: Using BLAST
 
02:00
How to use BLAST within NCBI's Sequence Viewer (Graphics display).
Views: 15236 NCBI
Save Searches and Set E-mail Alerts
 
01:21
Save searches and set up e-mail alerts for new results in many NCBI databases. This video is a cosmetic update to the video released on May 8, 2013. For video updates, subscribe to our YouTube channel: www.youtube.com/ncbinlm
Views: 15113 NCBI
NCBI's Genome Data Viewer - Introducing the BLAST Widget
 
02:30
The latest addition to NCBI's genome browser, the Genome Data Viewer, is the BLAST widget. This video is a brief introduction to how the BLAST widget helps you visualize your BLAST results in the context of assembled genome sequences. The Genome Data Viewer: https://www.ncbi.nlm.nih.gov/genome/gdv/ To get video updates, subscribe to the NCBI YouTube channel: www.youtube.com/ncbinlm
Views: 1891 NCBI
PheGenI: The Phenotype-Genotype Integrator
 
02:50
A January 2013 update to the PheGenI resource of dbGaP. Changes include: autocomplete search for Traits; example searches; source choice; and enhanced Genome View.
Views: 3237 NCBI
Webinar: Introduction to NCBI's E-utilities API
 
54:55
A webinar recorded October 15, 2014 that introduces a powerful API to the NCBI databases, including a Unix-based approach called Entrez Direct.
Views: 19255 NCBI
The NCBI Minute: Find All Variants with ClinVar
 
09:54
This video shows you how to rapidly find variants related to human disease in the NCBI ClinVar resource as well as how to download batches of variants and related information in .xml and .vcf format. Get video updates, subscribe to the NCBI YouTube channel: www.youtube.com/ncbinlm Find other NCBI webinars: http://www.ncbi.nlm.nih.gov/home/coursesandwebinars.shtml
Views: 3455 NCBI
Sequence Viewer: Download Transcripts, Exons and Proteins
 
03:01
How to download FASTA sequence for certain gene features while in the NCBI's Sequence Viewer. Sequence Viewer homepage: www.ncbi.nlm.nih.gov/projects/sviewer/ Sequence Viewer playlist: https://www.youtube.com/playlist?list=PL76D7EE6A6A8AC1C3
Views: 11027 NCBI
A Guide to NCBI: Gene Expression, Part 2
 
05:18
Part 2 of the gene expression module from a workshop at the National Library of Medicine in April 2013 called, "A Librarian's Guide to NCBI." These are introductory level videos, suitable for beginning or intermediate users of NCBI resources and for those with little background in molecular biology.
Views: 16976 NCBI
dbGaP: Apply for Controlled Access Data
 
04:23
This video reviews the steps to request access to controlled data in dbGaP.
Views: 7734 NCBI
NCBI Minute: The Updated ORFfinder
 
13:10
Presented July 6, 2016. NCBI has a completely redesigned Open Reading Frame Finder (ORFfinder) that quickly identifies complete coding regions on prokaryotic genomic and eukaryotic mRNA sequences and provides the protein translation. ORFfinder can submit the results to SmartBLAST or standard protein BLAST to identify the predicted proteins. You will learn how to access and use ORFfinder to analyze predicted coding regions. Get video updates, subscribe to the NCBI YouTube channel: www.youtube.com/ncbinlm Find other NCBI webinars: www.ncbi.nlm.nih.gov/home/coursesandwebinars.shtml
Views: 4778 NCBI
Webinar: Pubmed for Scientists
 
45:20
Presented November 12, 2015. In this Webinar designed for scientists you will learn to more efficiently search by author; explore a subject; use filters to narrow your search; find the full text article; and set up an e-mail alert for new research on your topic. Includes an informative question and answer period. For video updates, subscribe to our YouTube channel: www.youtube.com/ncbinlm
Views: 40624 NCBI
NCBI NOW, Lecture 2, The FASTQ File Format
 
18:37
Learn how to process fastq files, the most common raw data file in next generation sequencing (NGS), so that they are ready for alignment and subsequent variant calling. Dr. Sijung Yun provides a detailed description of the anatomy of these files, as well as how to filter them for quality, which is critical for almost all projects. The filtering tutorial is presented in the galaxy framework, an excellent environment for learning NGS.
Views: 6767 NCBI
NCBI NOW, Lecture 1, NCBI Resources for NGS
 
29:45
This lecture shows you how to find and download genomic datasets from NCBI, provides some common NGS terminology, introduces the content of the NCBI NOW course, and tells you how to get answers to your questions during the course.
Views: 9797 NCBI
NCBI Minute: Tailor Your PubMed Search Experience with My NCBI
 
07:48
Presented June 28, 2017. Are you using your My NCBI account to tailor your PubMed search experience? If not, let us show you how My NCBI uses custom preferences for dynamic PubMed results. 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. Don’t have a My NCBI account yet? Get started at My NCBI: https://www.ncbi.nlm.nih.gov/account To get video updates, subscribe to the NCBI YouTube channel: www.youtube.com/ncbinlm
Views: 3316 NCBI
NCBI Minute: Setting Up Alerts for New Data in My NCBI
 
07:46
Presented March 1, 2017. Many people use My NCBI alerts to be notified when new citations of interest appear in PubMed. But you can also set alerts for new datasets in the traditional sequence databases, as well as SRA and GEO. In this webinar, you learn how to configure dataset notifications for new molecular data using My NCBI. To get video updates, subscribe to the NCBI YouTube channel: www.youtube.com/ncbinlm
Views: 1048 NCBI
How to use Multiple Sequence Aligners in Genome Workbench
 
03:33
The June 2017 release (2.12.0) of Genome Workbench (GBench) adds three MSA programs, Kalign, MAFFT, and Clustal Omega, to the two existing programs, MUSCLE and ClustalW. This video shows you how to import sequences for alignment, run the MSA program, and display the results in GBench's multiple alignment view. www.ncbi.nlm.nih.gov/tools/gbench/ To get video updates, subscribe to the NCBI YouTube channel: www.youtube.com/ncbinlm
Views: 2686 NCBI
Genome Workbench: Import BAMs and Export Alignments
 
04:02
Learn how to import BAM files, create a BAM index file, and export selected alignments using NCBI's Genome Workbench. See the Genome Workbench homepage: www.ncbi.nlm.nih.gov/tools/gbench/
Views: 4437 NCBI
The NCBI Minute: SmartBLAST Introduction
 
15:46
Presented September 2, 2015. SmartBLAST is a fast alternative to ordinary protein-protein BLAST searches for the identification of protein query sequences. It can instantly provide a name for an unknown protein. See this page for more: www.ncbi.nlm.nih.gov/home/coursesandwebinars.shtml For video updates, subscribe to our YouTube channel: www.youtube.com/ncbinlm
Views: 12808 NCBI
A Guide to NCBI: Gene Expression, Part 3
 
05:56
The final part of the gene expression module from a workshop at the National Library of Medicine in April 2013 called, "A Librarian's Guide to NCBI." These are introductory level videos, suitable for beginning or intermediate users of NCBI resources and for those with little background in molecular biology.
Views: 13262 NCBI
NCBI NOW, Lecture 5, More DNA-seq and Basic Variant Analysis
 
40:49
Mapping DNAseq reads to reference genomes and calling variants are core competencies in next generation sequencing (NGS) analysis. In this two part lecture, Dr. Jonathan Pevsner leads a hands on tutorial for acquiring these skills. Please go to [ftp site] for accompanying documents. (Part 2 of 2).
Views: 5251 NCBI
Webinar: A Submitter's Guide to GenBank, Part 1
 
57:50
Subtitle: Using BankIt for Small-Scale Nucleotide Sequence Submissions. The webinar was presented December 17, 2014 and outlines using BankIt, a web-based submission tool at NCBI, to submit sequence data to the GenBank® database. Part 2 is scheduled for Jan. 7, 2015. For more information, see: http://www.ncbi.nlm.nih.gov/education/webinars/.
Views: 26724 NCBI
The NCBI Minute: Finding Genomes and Annotations in Assembly
 
12:05
Presented April 29, 2015. Learn how to quickly find and download sequence and annotation files for a genome by starting with the NCBI Assembly database and following links to the files you want on our FTP site. For more webinars, go to www.ncbi.nlm.nih.gov/home/coursesandwebinars.shtml and our YouTube webinar playlist, https://www.youtube.com/playlist?list=PLH-TjWpFfWrt-lX_ltntX1M75KBXb03g9
Views: 5095 NCBI
My Bibliography
 
02:54
A tutorial demonstrating how to use the My Bibliography component of My NCBI. For information about Public Access Compliance, please see the related video at http://www.youtube.com/watch?v=JYODIOD_YYE&list=PL88E9E5EA3BECE0D7&index=3
Views: 52729 NCBI

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