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.|
- 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
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:
Recent BioMed Central research articles citing this resource
Crappé Jeroen et al., Combining in silico prediction and ribosome profiling in a genome-wide search for novel putatively coding sORFs Human and rodent genomics. BMC Genomics (2013) doi:10.1186/1471-2164-14-648
Tian Ming et al., Copy number variants in locally raised Chinese chicken genomes determined using array comparative genomic hybridization Non-human and non-rodent vertebrate genomics. BMC Genomics (2013) doi:10.1186/1471-2164-14-262
Distefano Rosario et al., VIRGO: visualization of A-to-I RNA editing sites in genomic sequences Italian Society of Bioinformatics (BITS): Annual Meeting 2012 Ninth Annual Meeting of the Italian Society of Bioinformatics (BITS). BMC Bioinformatics (2013) doi:10.1186/1471-2105-14-S7-S5
Blattler Adam et al., ZBTB33 binds unmethylated regions of the genome associated with actively expressed genes. Epigenetics Chromatin (2013) doi:10.1186/1756-8935-6-13
van Heesch Sebastiaan et al., Systematic biases in DNA copy number originate from isolation procedures. Genome Biology (2013) doi:10.1186/gb-2013-14-4-r33
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.
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.