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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

Silkaitis Katherine et al., Sex-biased chromatin and regulatory cross-talk between sex chromosomes, autosomes, and mitochondria. Biology of Sex Differences (2014) doi:10.1186/2042-6410-5-2

Andersen Øivind et al., The conserved Phe GH5 of importance for hemoglobin intersubunit contact is mutated in gadoid fish Genome evolution and evolutionary systems biology. BMC Evolutionary Biology (2014) doi:10.1186/1471-2148-14-54

Wang Yan-Yan et al., Genome characteristics reveal the impact of lichenization on lichen-forming fungus Endocarpon pusillum Hedwig (Verrucariales, Ascomycota) Eukaryote microbial genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-34

Taudien Stefan et al., Narrowing down the distal border of the copy number variable beta-defensin gene cluster on human 8p23. BMC Research Notes (2014) doi:10.1186/1756-0500-7-93

Le Tu Ngoc et al., A nucleosomal approach to inferring causal relationships of histone modifications Selected articles from the Twelfth Asia Pacific Bioinformatics Conference (APBC 2014): Genomics The Twelfth Asia Pacific Bioinformatics Conference (APBC 2014). BMC Genomics (2014) doi:10.1186/1471-2164-15-S1-S7

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.
Copyright 2009, OpenHelix, LLC.

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