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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

Barua Subit et al., Single-base resolution of mouse offspring brain methylome reveals epigenome modifications caused by gestational folic acid. Epigenetics Chromatin (2014) doi:10.1186/1756-8935-7-3

Yang Peng et al., LDsplit: screening for cis -regulatory motifs stimulating meiotic recombination hotspots by analysis of DNA sequence polymorphisms Sequence analysis (applications). BMC Bioinformatics (2014) doi:10.1186/1471-2105-15-48

Medvedeva A Yulia et al., Effects of cytosine methylation on transcription factor binding sites Human and rodent genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-119

Schmidt W Jeffrey et al., Novel transcripts from a distinct promoter that encode the full-length AKT1 in human breast cancer cells Cell and molecular biology. BMC Cancer (2014) doi:10.1186/1471-2407-14-195

Xie Lan et al., MKL1/2 and ELK4 co-regulate distinct serum response factor (SRF) transcription programs in macrophages Human and rodent genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-301

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.
Copyright 2009, OpenHelix, LLC.

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