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.|
- 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
This tutorial is a part of the tutorial group Genome Browsers. You might find the other tutorials in the group interesting:
Recent BioMed Central research articles citing this resource
Chitwood L James et al., RNA-seq analysis of single bovine blastocysts Non-human and non-rodent vertebrate genomics. BMC Genomics (2013) doi:10.1186/1471-2164-14-350
Distefano Rosario et al., VIRGO: visualization of A-to-I RNA editing sites in genomic sequences Italian Society of Bioinformatics (BITS): Annual Meeting 2012 Ninth Annual Meeting of the Italian Society of Bioinformatics (BITS). BMC Bioinformatics (2013) doi:10.1186/1471-2105-14-S7-S5
Tryggestad B Jeanie et al., Hypogonadotropic hypogonadism presenting with arhinia: a case report. Journal of Medical Case Reports (2013) doi:10.1186/1752-1947-7-52
Zhang Zhenzhen et al., Direct transdifferentiation of spermatogonial stem cells to morphological, phenotypic and functional hepatocyte-like cells via the ERK1/2 and Smad2/3 signaling pathways and the inactivation of cyclin A, cyclin B and cyclin E. Cell Communication and Signaling (2013) doi:10.1186/1478-811X-11-67
Miyazaki A Flávia et al., Semantic integration of gene expression analysis tools and data sources using software connectors Proceedings of the 8th International Conference of the Brazilian Association for Bioinformatics and Computational Biology (X-meeting 2012) 8th International Conference of the Brazilian Association for Bioinformatics and Computational Biology (X-meeting 2012). BMC Genomics (2013) doi:10.1186/1471-2164-14-S6-S2
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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Copyright 2009, OpenHelix, LLC.