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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

Drozniewska Malgorzata et al., PAX3 gene deletion detected by microarray analysis in a girl with hearing loss. Molecular Cytogenetics (2014) doi:10.1186/1755-8166-7-30

Li Biao et al., In silico comparative characterization of pharmacogenomic missense variants SNP-SIG 2013: Identification and annotation of genetic variants in the context of structure, function, and disease SNP-SIG 2013: Identification and annotation of genetic variants in the context of structure, function, and disease. BMC Genomics (2014) doi:10.1186/1471-2164-15-S4-S4

Grimholt M Runa et al., Rapid and reliable detection of α-globin copy number variations by quantitative real-time PCR. BMC Hematology (2014) doi:10.1186/2052-1839-14-4

Frietze Seth et al., Global analysis of ZNF217 chromatin occupancy in the breast cancer cell genome reveals an association with ERalpha Human and rodent genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-520

Chen Ting-Wen et al., ChIPseek, a web-based analysis tool for ChIP data Transcriptomic methods. BMC Genomics (2014) doi:10.1186/1471-2164-15-539

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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Copyright 2009, OpenHelix, LLC.

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