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
Benjamin M Ashlee et al., Comparing reference-based RNA-Seq mapping methods for non-human primate data Transcriptomic methods. BMC Genomics (2014) doi:10.1186/1471-2164-15-570
Ren Fang et al., Identification of differentially methylated genes in the malignant transformation of ovarian endometriosis. Journal of Ovarian Research (2014) doi:10.1186/1757-2215-7-73
Huang Huifang et al., A new hierarchical method for inter-patient heartbeat classification using random projections and RR intervals. BioMedical Engineering OnLine (2014) doi:10.1186/1475-925X-13-90
Mutarelli Margherita et al., A community-based resource for automatic exome variant-calling and annotation in Mendelian disorders Italian Society of Bioinformatics (BITS): Annual Meeting 2013: Genomics Tenth Annual Meeting of the Italian Society of Bioinformatics (BITS). BMC Genomics (2014) doi:10.1186/1471-2164-15-S3-S5
Yang Shengjie et al., Genome-wide eQTLs and heritability for gene expression traits in unrelated individuals Transcriptomic methods. BMC Genomics (2014) doi:10.1186/1471-2164-15-13
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) .
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.