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
Hu Yang Hai et al., Deep sequencing reveals a novel class of bidirectional promoters associated with neuronal genes Human and rodent genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-457
Dutheil Y Julien et al., MafFilter: a highly flexible and extensible multiple genome alignment files processor Comparative and evolutionary genomics. BMC Genomics (2014) doi:10.1186/1471-2164-15-53
Marques Z Francine et al., Measurement of absolute copy number variation reveals association with essential hypertension Functional and structural genomics. BMC Medical Genomics (2014) doi:10.1186/1755-8794-7-44
Shen Li et al., ngs.plot: Quick mining and visualization of next-generation sequencing data by integrating genomic databases Transcriptomic methods. BMC Genomics (2014) doi:10.1186/1471-2164-15-284
Van Bortle Kevin et al., Insulator function and topological domain border strength scale with architectural protein occupancy. Genome Biology (2014) doi:10.1186/gb-2014-15-5-r82
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.