GBrowse User Introductory Tutorial
Tutorial and training materials by OpenHelix
| 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 The tool is flexible to allow you to upload and incorporate your own unpublished data into the genomic viewer.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. | Advertisement:
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You'll 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
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Related tutorialsThis tutorial is a part of the tutorial group Genome Browsers. You might find the other tutorials in the group interesting:
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| Recent BioMed Central research articles citing this resourceLacroix Thomas et al., CompaGB: An open framework for genome browsers comparison. BMC Research Notes (2011) doi:10.1186/1756-0500-4-133 Dèrozier Sandra et al., Exploration of plant genomes in the FLAGdb environment. Plant Methods (2011) doi:10.1186/1746-4811-7-8 Minning A Todd et al., Widespread, focal copy number variations (CNV) and whole chromosome aneuploidies in Trypanosoma cruzi strains revealed by array comparative genomic hybridization. BMC Genomics (2011) doi:10.1186/1471-2164-12-139 Wang Jun et al., Rice-Map: a new-generation rice genome browser. BMC Genomics (2011) doi:10.1186/1471-2164-12-165 Fujii Sota et al., Transcriptome map of plant mitochondria reveals islands of unexpected transcribed regions. BMC Genomics (2011) doi:10.1186/1471-2164-12-279 |
More about the resource:
GBrowse stands for “Generic Genome Browser”. It is a web application to view and explore annotated genomes. It was developed by GMOD, the Generic Model Organism Database, which is a community of biologists and computer programmers dedicated to the idea of making free, open-source software available to all model organism databases, or MODs, with the goal of simplifying and standardizing the appearance and usage of these MODs. When new genomes from different organisms are sequenced and a dedicated annotated database is created to serve that genome, the curators can use GBrowse to get their MOD up and running in no time.
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