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The UCSC Genome Browser Introduction

Tutorial and training materials by OpenHelix

Learn to use the UCSC Genome Browser with this free tutorial, sponsored by UCSC Genome Bioinformatics Group. The UCSC Genome Browser provides a way to examine the data from many genomes, with extensive annotation tracks for various data types including known genes, predicted genes, SNPs, comparative multi-species analysis and much more. This introductory tutorial focuses on the foundation and framework for the organization and display of the data, and basic text and sequence searches. This tutorial, which is the first in a series of three tutorials on the UCSC Genome Browser, will get you on your way to expertly navigating this vital tool for genomic research.
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You'll learn:

  • to perform basic text searches on the UCSC Genome Browser
  • to understand and customize the displays in genomic regions of interest
  • to access additional details and sequence data
  • to start with a sequence and find genomic regions of interest using BLAT


Related tutorials

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


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

Safi Zaman Sher et al., Differential expression and role of hyperglycemia induced oxidative stress in epigenetic regulation of β1, β2 and β3-adrenergic receptors in retinal endothelial cells Functional and structural genomics. BMC Medical Genomics (2014) doi:10.1186/1755-8794-7-29

Kai Wataru et al., A ddRAD-based genetic map and its integration with the genome assembly of Japanese eel ( Anguilla japonica ) provides insights into genome evolution after the teleost-specific genome duplication Non-human and non-rodent vertebrate genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-233

Scharpf B Robert et al., Copy number polymorphisms near SLC2A9 are associated with serum uric acid concentrations Complex traits and quantitative genetics. BMC Genetics (2014) doi:10.1186/1471-2156-15-81

Rodriguez-Fontenla Cristina et al., Genetic distance as an alternative to physical distance for definition of gene units in association studies Human and rodent genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-408

Hayes S Kelly et al., Sex-dependent genetic effects on immune responses to a parasitic nematode Human and rodent genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-193

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, along with 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 using BLAT, or probed in depth with customized queries. Be sure to see the other UCSC tutorials for advanced topics and additional tools as well.


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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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