Learn to use GBrowse, a web application that allows you to explore genomic sequences together with annotated data. GBrowse is rapidly becoming a genomic browser of choice among organism databases, because the browser is both universal and yet customizable. Once you learn to use GBrowse at one database, you'll be able to use it to view any genome. Results can be customized to show only the data you want to see. The tool is flexible to allow you to upload and incorporate your own unpublished data into the genomic viewer. You'll have fun as you explore a variety of genomes (from paramecia to personal genomics) with the new perspective and detailed annotations that GBrowse provides.

You will learn:

  • the basic layout and search methods at GBrowse
  • how to access detailed annotation data tied to genomic sequences
  • how to select and customize annotations using Tracks
  • how to upload and incorporate your own data or other external data sources
  • take a tour of different GBrowse installations at model organism databases
TUTORIAL RELATED CONTENT

TUTORIALS

This tutorial is a part of the tutorial group Genome Browsers. You might find the other tutorials in the group interesting:

Ensembl: Ensembl Genome Browser

Integrated Microbial Genomes (IMG): IMG is a powerful community resource for the comparative analysis and annotation of microbial genome data.

Overview of Genome Browsers: Various Genome Browsers examined

Ensembl Legacy: Older version of Ensembl Genome Browser

Map Viewer: Map Viewer Genome Browser from NCBI


This tutorial is a part of the tutorial group Plant resources. You might find the other tutorials in the group interesting:

Ensembl: Ensembl Genome Browser

TAIR: The Arabidopsis Information Resource

PlantGDB: Plant Genome Database

Ensembl Legacy: Older version of Ensembl Genome Browser

Gramene: A resource on rice and other grass genomes

World Tour of Genomics Resources: A World Tour of Genome Resources for finding and learning the right resource for your needs.

CATEGORIES

Genome Databases (euk) : Genomic databases or repositories primarily aimed at eukaryotic organisms. Some may contain prokaryotic data as well.

Genome Databases (prok + viral) : Genomic databases or repositories primarily aimed at prokaryotic or viral organisms. Some may contain eukaryotic data as well.

BLOG POSTS

Video Tip of the Week: Centralized Model Organism Database (CMOD): This week's Tip of the Week is a bit different. The database resource that's the focus of this piece doesn't exist yet. Parts of it do, but there's a ways to go before we actually have a Centralized Mo...

Video Tip of the Week: Multi-image Genome viewer, MIG: For this week's Tip of the Week, I'm going to highlight a tool that I think is very necessary. In fact, more than once we've had folks in workshops ask for something like this. I hope that some people ...

Official Launch of the new Database of Genomic Variants (DGV): The Database of Genomic Variants (DGV) has been working on a new site for a while. It's been available as a beta site to get used to it and kick the tires, but now it's ready for prime time. They are r...

Video Tip of the Week: Phytozome and the Peach Genome: We've laughed in the past about a "genome of the day" because there are so many projects each week that we want to explore, and it's hard to keep up. But recently I wanted to have a look at the peach ...

Video Tip of the Week: TreeGenes: There was one more Tip of the Week left before our annual review of tips we've done, and I wasn't sure what to cover. And then last week a whole slew of tweets came across my "genome" column referencin...

BIOMED CENTRAL

Recent BioMed Central research articles citing this resource

Bostan Hamed et al., NexGenEx-Tom: a gene expression platform to investigate the functionalities of the tomato genome. BMC Plant Biology (2015) doi:10.1186/s12870-014-0412-2

Armanet Narjes et al., Double Xp11.22 deletion including SHROOM4 and CLCN5 associated with severe psychomotor retardation and Dent disease. Molecular Cytogenetics (2015) doi:10.1186/s13039-015-0107-x

Fang Shou-Min et al., Comparative analysis of the silk gland transcriptomes between the domestic and wild silkworms Multicellular invertebrate genomics. BMC Genomics (2015) doi:10.1186/s12864-015-1287-9

Lesur Isabelle et al., The oak gene expression atlas: insights into Fagaceae genome evolution and the discovery of genes regulated during bud dormancy release Plant genomics. BMC Genomics (2015) doi:10.1186/s12864-015-1331-9

Subramanyam Subhashree et al., Hessian fly larval feeding triggers enhanced polyamine levels in susceptible but not resistant wheat. BMC Plant Biology (2015) doi:10.1186/s12870-014-0396-y