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Various Genome Browsers examined

Tutorial and training materials by OpenHelix

Become aware of genome browser resources with this introductory tutorial. Genome browsers organize tremendous volumes of genome sequence data, adding context to genomic sequence with many types of annotations. Several major genome web browsers are widely used to search, retrieve, and display genome information for human and numerous other species. Here we introduce Ensembl, Map Viewer, UCSC Genome Browser, and the Integrated Microbial Genomes (IMG) browser. We also introduce the GBrowse software system, which is the framework for many additional genome browsers. Biomedical researchers need to be aware of these resources and be able to access the data available within.
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You'll learn:

  • where to find these useful tools
  • an overview of the organization and display features
  • some guidance on how or why to choose a given browser for your research needs


Related tutorials

This 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 resource

Livi M Carmen et al., Protein-specific prediction of mRNA binding using RNA sequences, binding motifs and predicted secondary structures Sequence analysis (applications). BMC Bioinformatics (2014) doi:10.1186/1471-2105-15-123

Metzger Julia et al., Next generation sequencing gives an insight into the characteristics of highly selected breeds versus non-breed horses in the course of domestication Non-human and non-rodent vertebrate genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-562

Stueve Ryan Theresa et al., CYP19A1 promoter methylation in saliva associated with milestones of pubertal timing in urban girls Genetics and congenital disorders. BMC Pediatrics (2014) doi:10.1186/1471-2431-14-78

Warris Sven et al., Fast selection of miRNA candidates based on large-scale pre-computed MFE sets of randomized sequences. BMC Research Notes (2014) doi:10.1186/1756-0500-7-34

Gültas Mehmet et al., Quantum coupled mutation finder: predicting functionally or structurally important sites in proteins using quantum Jensen-Shannon divergence and CUDA programming Structural analysis. BMC Bioinformatics (2014) doi:10.1186/1471-2105-15-96

More about the resource:

The Ensembl browser is provided by the Sanger Institute and the EBI. Map Viewer comes to you from the NCBI. UCSC Genome Browser is produced by the Genome Bioinformatics Group at UC Santa Cruz. Integrated Microbial Genome (IMG) is supported by the DOE Joint Genome Institute, US Department of Energy. GBrowse is an open-source software program developed by the Generic Model Organism Database (GMOD) .


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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.
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