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 The tool is flexible to allow you to upload and incorporate your own unpublished data into the genomic viewer.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.|
- 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
This tutorial is a part of the tutorial group Genome Browsers. You might find the other tutorials in the group interesting:
This tutorial is a part of the tutorial group Gramene-associated resources. You might find the other tutorials in the group interesting:
Recent BioMed Central research articles citing this resource
Sun Fenglong et al., Whole-genome discovery of miRNAs and their targets in wheat ( Triticum aestivum L.) Genetics and crop biotechnology. BMC Plant Biology (2014) doi:10.1186/1471-2229-14-142
Tang Haibao et al., An improved genome release (version Mt4.0) for the model legume Medicago truncatula Plant genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-312
Reid Ian et al., SnowyOwl: accurate prediction of fungal genes by using RNA-Seq and homology information to select among ab initio models Sequence analysis (methods). BMC Bioinformatics (2014) doi:10.1186/1471-2105-15-229
O’Bleness Majesta et al., Finished sequence and assembly of the DUF1220-rich 1q21 region using a haploid human genome Human and rodent genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-387
Vitulo Nicola et al., A deep survey of alternative splicing in grape reveals changes in the splicing machinery related to tissue, stress condition and genotype Genomics and evolution. BMC Plant Biology (2014) doi:10.1186/1471-2229-14-99
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.
The materials and slides offered can not be resold or used for profit purposes. Reproduction, distribution and/or use is strictly limited to instructional purposes only and can not be used for for monetary gain or wide distribution.
Copyright 2009, OpenHelix, LLC.