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Additional tools at the UCSC Genome Browser

Tutorial and training materials by OpenHelix

Learn to use tools associated with the UCSC Genome Browser with this free tutorial, sponsored by UCSC Genome Bioinformatics Group. The UCSC Genome Browser provides other tools beyond genome browsing and querying that may be useful to your research. This third tutorial in the UCSC Genome Browser series explores additional interfaces, access points and visualizations for various data types, all within the framework of the official genome reference sequences from many species.
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You'll learn:

  • to use the clever Gene Sorter to find relationships among genes
  • to perform in silico PCR to identify possible PCR products
  • to access ENCODE project data, including pre-publication material
  • to find protein data in the Proteome Browser
  • to explore image data with the VisiGene Browser


Related tutorials

This tutorial is a part of the tutorial group UCSC Tutorials. You might find the other tutorials in the group interesting:

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Recent BioMed Central research articles citing this resource

Liu Hui et al., Detection of type 2 diabetes related modules and genes based on epigenetic networks Selected articles from the Twelfth Asia Pacific Bioinformatics Conference (APBC 2014): Systems Biology The Twelfth Asia Pacific Bioinformatics Conference (APBC 2014). BMC Systems Biology (2014) doi:10.1186/1752-0509-8-S1-S5

Wada Yusaku et al., Development of detection method for novel fusion gene using GeneChip exon array -No section-. Journal of Clinical Bioinformatics (2014) doi:10.1186/2043-9113-4-3

Zammataro Luca et al., AnnotateGenomicRegions: a web application Integrated Bio-Search: Selected Works from the 12th International Workshop on Network Tools and Applications in Biology (NETTAB 2012) Integrated Bio-Search: 12th International Workshop on Network Tools and Applications in Biology (NETTAB 2012). BMC Bioinformatics (2014) doi:10.1186/1471-2105-15-S1-S8

Miller A Jeremy et al., Improving reliability and absolute quantification of human brain microarray data by filtering and scaling probes using RNA-Seq Transcriptomic methods. BMC Genomics (2014) doi:10.1186/1471-2164-15-154

Kalashikam Rao Rajender et al., Leptin gene promoter DNA methylation in WNIN obese mutant rats. Lipids in Health and Disease (2014) doi:10.1186/1476-511X-13-25

More about the resource:

The UCSC Genome Browser, sometimes referred to as the "Golden Path" browser, offers a well-organized and user-friendly view of the human genome, and dozens of other genomes as well. The official genomic sequence is supplemented with many other data types which are useful to researchers: expression, variation, comparative genomics, and many more. The data can be accessed with simple text or sequence searches, or probed in depth with customized queries.


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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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